partis-bcr 1.0.8__py3-none-any.whl → 1.0.9.post1.dev1__py3-none-any.whl

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Files changed (156) hide show
  1. packages/ham/bcrham +0 -0
  2. packages/ig-sw/src/ig_align/ig-sw +0 -0
  3. {partis_bcr-1.0.8.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/METADATA +1 -1
  4. {partis_bcr-1.0.8.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/RECORD +155 -73
  5. test/new-results/get-selection-metrics-new-simu.yaml +1 -0
  6. test/new-results/test.log +12 -16
  7. test/paired/new-results/get-selection-metrics-new-simu-chosen-abs.csv +8 -8
  8. test/paired/new-results/partition-new-simu/fasttree/iclust-0/fasttree.out +1 -1
  9. test/paired/new-results/partition-new-simu/fasttree/iclust-0/log +8 -8
  10. test/paired/new-results/partition-new-simu/fasttree/iclust-1/fasttree.out +1 -1
  11. test/paired/new-results/partition-new-simu/fasttree/iclust-1/log +7 -7
  12. test/paired/new-results/partition-new-simu/fasttree/iclust-2/fasttree.out +1 -1
  13. test/paired/new-results/partition-new-simu/fasttree/iclust-2/log +9 -9
  14. test/paired/new-results/partition-new-simu/igh+igk/partition-igh/fasttree/iclust-0/fasttree.out +1 -1
  15. test/paired/new-results/partition-new-simu/igh+igk/partition-igh/fasttree/iclust-0/log +8 -8
  16. test/paired/new-results/partition-new-simu/igh+igk/partition-igh/fasttree/iclust-1/fasttree.out +1 -1
  17. test/paired/new-results/partition-new-simu/igh+igk/partition-igh/fasttree/iclust-1/log +9 -9
  18. test/paired/new-results/partition-new-simu/igh+igk/partition-igh-selection-metrics.yaml +1 -1
  19. test/paired/new-results/partition-new-simu/igh+igk/partition-igk/fasttree/iclust-0/fasttree.out +1 -1
  20. test/paired/new-results/partition-new-simu/igh+igk/partition-igk/fasttree/iclust-0/log +8 -8
  21. test/paired/new-results/partition-new-simu/igh+igk/partition-igk/fasttree/iclust-1/fasttree.out +1 -1
  22. test/paired/new-results/partition-new-simu/igh+igk/partition-igk/fasttree/iclust-1/log +4 -4
  23. test/paired/new-results/partition-new-simu/igh+igk/partition-igk-selection-metrics.yaml +1 -1
  24. test/paired/new-results/partition-new-simu/igh+igl/partition-igh/fasttree/iclust-0/fasttree.out +1 -1
  25. test/paired/new-results/partition-new-simu/igh+igl/partition-igh/fasttree/iclust-0/log +9 -9
  26. test/paired/new-results/partition-new-simu/igh+igl/partition-igh-selection-metrics.yaml +1 -1
  27. test/paired/new-results/partition-new-simu/igh+igl/partition-igl/fasttree/iclust-0/fasttree.out +1 -1
  28. test/paired/new-results/partition-new-simu/igh+igl/partition-igl/fasttree/iclust-0/log +9 -9
  29. test/paired/new-results/partition-new-simu/igh+igl/partition-igl/fasttree/iclust-1/log +3 -3
  30. test/paired/new-results/partition-new-simu/igh+igl/partition-igl-selection-metrics.yaml +1 -1
  31. test/paired/new-results/partition-new-simu/selection-metrics.yaml +1 -1
  32. test/paired/new-results/partition-new-simu/single-chain/partition-igh.yaml +1 -1
  33. test/paired/new-results/partition-new-simu-annotation-performance/plots/flcount-matrix.svg +107 -107
  34. test/paired/new-results/partition-new-simu-annotation-performance/plots/func-non-func-per-drop-log.svg +83 -83
  35. test/paired/new-results/partition-new-simu-annotation-performance/plots/func-non-func-per-drop.svg +61 -61
  36. test/paired/new-results/partition-new-simu-annotation-performance/plots/paired-seqs-per-seq-after.svg +18 -18
  37. test/paired/new-results/partition-new-simu-annotation-performance/plots/paired-seqs-per-seq-before.svg +24 -24
  38. test/paired/new-results/partition-new-simu-annotation-performance/plots/pseq-matrix.svg +35 -35
  39. test/paired/new-results/partition-new-simu-annotation-performance/plots/seqs-per-droplet.svg +22 -22
  40. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-correct-family.svg +45 -45
  41. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-correct.svg +45 -45
  42. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-mispaired.svg +45 -45
  43. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-multiple.svg +15 -15
  44. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-near-family.svg +15 -15
  45. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-total.svg +47 -47
  46. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-unpaired.svg +48 -48
  47. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance.svg +27 -27
  48. test/paired/new-results/run-times.csv +6 -6
  49. test/paired/new-results/subset-partition-new-simu/isub-0/partition.log +86 -102
  50. test/paired/new-results/subset-partition-new-simu/isub-1/igh+igk/partition-igh.yaml +1 -1
  51. test/paired/new-results/subset-partition-new-simu/isub-1/partition-igh.yaml +1 -1
  52. test/paired/new-results/subset-partition-new-simu/isub-1/partition.log +84 -100
  53. test/paired/new-results/subset-partition-new-simu/isub-1/single-chain/partition-igh.yaml +1 -1
  54. test/paired/new-results/subset-partition-new-simu/merged-partition.log +50 -54
  55. test/paired/new-results/subset-partition-new-simu/merged-subsets/igh+igk/partition-igh.yaml +1 -1
  56. test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/sw-cache.yaml +1 -1
  57. test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igk/sw-cache.yaml +1 -1
  58. test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igl/sw-cache.yaml +1 -1
  59. test/paired/new-results/subset-partition-new-simu/merged-subsets/partition-igh.yaml +1 -1
  60. test/paired/new-results/test.log +203 -236
  61. test/ref-results/partition-new-simu/fasttree/iclust-0/fasttree.out +1 -0
  62. test/ref-results/partition-new-simu/fasttree/iclust-0/input-seqs.fa +24 -0
  63. test/ref-results/partition-new-simu/fasttree/iclust-0/log +23 -0
  64. test/ref-results/partition-new-simu/fasttree/iclust-1/fasttree.out +1 -0
  65. test/ref-results/partition-new-simu/fasttree/iclust-1/input-seqs.fa +16 -0
  66. test/ref-results/partition-new-simu/fasttree/iclust-1/log +23 -0
  67. test/ref-results/partition-new-simu/fasttree/iclust-2/fasttree.out +1 -0
  68. test/ref-results/partition-new-simu/fasttree/iclust-2/input-seqs.fa +16 -0
  69. test/ref-results/partition-new-simu/fasttree/iclust-2/log +22 -0
  70. test/ref-results/partition-new-simu/iqtree/iclust-0/input-seqs.fa +24 -0
  71. test/ref-results/partition-new-simu/iqtree/iclust-0/log +430 -0
  72. test/ref-results/partition-new-simu/iqtree/iclust-0/out.bionj +1 -0
  73. test/ref-results/partition-new-simu/iqtree/iclust-0/out.ckp.gz +0 -0
  74. test/ref-results/partition-new-simu/iqtree/iclust-0/out.iqtree +282 -0
  75. test/ref-results/partition-new-simu/iqtree/iclust-0/out.log +429 -0
  76. test/ref-results/partition-new-simu/iqtree/iclust-0/out.mldist +13 -0
  77. test/ref-results/partition-new-simu/iqtree/iclust-0/out.model.gz +0 -0
  78. test/ref-results/partition-new-simu/iqtree/iclust-0/out.state +3529 -0
  79. test/ref-results/partition-new-simu/iqtree/iclust-0/out.treefile +1 -0
  80. test/ref-results/partition-new-simu/iqtree/iclust-1/input-seqs.fa +16 -0
  81. test/ref-results/partition-new-simu/iqtree/iclust-1/log +373 -0
  82. test/ref-results/partition-new-simu/iqtree/iclust-1/out.bionj +1 -0
  83. test/ref-results/partition-new-simu/iqtree/iclust-1/out.ckp.gz +0 -0
  84. test/ref-results/partition-new-simu/iqtree/iclust-1/out.iqtree +279 -0
  85. test/ref-results/partition-new-simu/iqtree/iclust-1/out.log +372 -0
  86. test/ref-results/partition-new-simu/iqtree/iclust-1/out.mldist +9 -0
  87. test/ref-results/partition-new-simu/iqtree/iclust-1/out.model.gz +0 -0
  88. test/ref-results/partition-new-simu/iqtree/iclust-1/out.state +2229 -0
  89. test/ref-results/partition-new-simu/iqtree/iclust-1/out.treefile +1 -0
  90. test/ref-results/partition-new-simu/iqtree/iclust-2/input-seqs.fa +16 -0
  91. test/ref-results/partition-new-simu/iqtree/iclust-2/log +375 -0
  92. test/ref-results/partition-new-simu/iqtree/iclust-2/out.bionj +1 -0
  93. test/ref-results/partition-new-simu/iqtree/iclust-2/out.ckp.gz +0 -0
  94. test/ref-results/partition-new-simu/iqtree/iclust-2/out.iqtree +274 -0
  95. test/ref-results/partition-new-simu/iqtree/iclust-2/out.log +374 -0
  96. test/ref-results/partition-new-simu/iqtree/iclust-2/out.mldist +9 -0
  97. test/ref-results/partition-new-simu/iqtree/iclust-2/out.model.gz +0 -0
  98. test/ref-results/partition-new-simu/iqtree/iclust-2/out.state +2283 -0
  99. test/ref-results/partition-new-simu/iqtree/iclust-2/out.treefile +1 -0
  100. test/ref-results/partition-new-simu/iqtree-annotations.yaml +1 -0
  101. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa +24 -0
  102. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.ancestralProbs +3461 -0
  103. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.ancestralStates +10 -0
  104. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.ancestralTree +1 -0
  105. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.bestModel +1 -0
  106. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.bestTree +1 -0
  107. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.bestTreeCollapsed +1 -0
  108. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.log +216 -0
  109. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.mlTrees +20 -0
  110. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.rba +0 -0
  111. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.reduced.phy +9 -0
  112. test/ref-results/partition-new-simu/raxml/iclust-0/input-seqs.fa.raxml.startTree +20 -0
  113. test/ref-results/partition-new-simu/raxml/iclust-0/log +454 -0
  114. test/ref-results/partition-new-simu/raxml/iclust-0/run.sh +3 -0
  115. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa +16 -0
  116. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.ancestralProbs +2203 -0
  117. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.ancestralStates +6 -0
  118. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.ancestralTree +1 -0
  119. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.bestModel +1 -0
  120. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.bestTree +1 -0
  121. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.bestTreeCollapsed +1 -0
  122. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.log +217 -0
  123. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.mlTrees +20 -0
  124. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.rba +0 -0
  125. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.reduced.phy +4 -0
  126. test/ref-results/partition-new-simu/raxml/iclust-1/input-seqs.fa.raxml.startTree +20 -0
  127. test/ref-results/partition-new-simu/raxml/iclust-1/log +440 -0
  128. test/ref-results/partition-new-simu/raxml/iclust-1/run.sh +3 -0
  129. test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa +16 -0
  130. test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.ancestralProbs +2275 -0
  131. test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.ancestralStates +6 -0
  132. test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.ancestralTree +1 -0
  133. test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.bestModel +1 -0
  134. test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.bestTree +1 -0
  135. test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.bestTreeCollapsed +1 -0
  136. test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.log +207 -0
  137. test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.mlTrees +20 -0
  138. test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.rba +0 -0
  139. test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.startTree +20 -0
  140. test/ref-results/partition-new-simu/raxml/iclust-2/log +420 -0
  141. test/ref-results/partition-new-simu/raxml/iclust-2/run.sh +3 -0
  142. test/ref-results/partition-new-simu/raxml-annotations.yaml +1 -0
  143. bin/FastTree-macos +0 -0
  144. {partis_bcr-1.0.8.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/cf-alleles.py +0 -0
  145. {partis_bcr-1.0.8.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/cf-germlines.py +0 -0
  146. {partis_bcr-1.0.8.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/compare-plotdirs.py +0 -0
  147. {partis_bcr-1.0.8.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/extract-pairing-info.py +0 -0
  148. {partis_bcr-1.0.8.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/gctree-run.py +0 -0
  149. {partis_bcr-1.0.8.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/get-naive-probabilities.py +0 -0
  150. {partis_bcr-1.0.8.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/parse-output.py +0 -0
  151. {partis_bcr-1.0.8.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/partis-test.py +0 -0
  152. {partis_bcr-1.0.8.data → partis_bcr-1.0.9.post1.dev1.data}/scripts/split-loci.py +0 -0
  153. {partis_bcr-1.0.8.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/WHEEL +0 -0
  154. {partis_bcr-1.0.8.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/entry_points.txt +0 -0
  155. {partis_bcr-1.0.8.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/licenses/COPYING +0 -0
  156. {partis_bcr-1.0.8.dist-info → partis_bcr-1.0.9.post1.dev1.dist-info}/top_level.txt +0 -0
test/paired/new-results/subset-partition-new-simu/isub-1/single-chain/partition-igh.yaml CHANGED
@@ -1 +1 @@
1
- {"version-info": {"partis-yaml": 0.1, "partis-git": ""}, "germline-info": {"locus": "igh", "functionalities": {}, "seqs": {"v": {"IGHV1-2*02": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCGGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAACCCTAACAGTGGTGGCACAAACTATGCACAGAAGTTTCAGGGCAGGGTCACCATGACCAGGGACACGTCCATCAGCACAGCCTACATGGAGCTGAGCAGGCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-69*04": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV2-70*01": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATAC", "IGHV3-33*01": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-7*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV4-39*01": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGACA"}, "d": {"IGHD1-1*01": "GGTACAACTGGAACGAC", "IGHD1-14*01": "GGTATAACCGGAACCAC", "IGHD1-26*01": "GGTATAGTGGGAGCTACTAC", "IGHD2-15*01": "AGGATATTGTAGTGGTGGTAGCTGCTACTCC", "IGHD2-2*01": "AGGATATTGTAGTAGTACCAGCTGCTATGCC", "IGHD2-8*01": "AGGATATTGTACTAATGGTGTATGCTATACC", "IGHD2-8*02": "AGGATATTGTACTGGTGGTGTATGCTATACC", "IGHD3-16*03": "GTATTATGATTACATTTGGGGGAGTTATCGTTATACC", "IGHD3-3*01": "GTATTACGATTTTTGGAGTGGTTATTATACC", "IGHD3-9*01": "GTATTACGATATTTTGACTGGTTATTATAAC", "IGHD6-19*01": "GGGTATAGCAGTGGCTGGTAC", "IGHD6-6*01": "GAGTATAGCAGCTCGTCC", "IGHD7-27*01": "CTAACTGGGGA"}, "j": {"IGHJ3*02": "TGATGCTTTTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG", "IGHJ4*02": "ACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "IGHJ5*02": "ACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "IGHJ6*02": "ATTACTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"}}, "cyst-positions": {"IGHV1-69*04": 285, "IGHV1-2*02": 285, "IGHV3-33*01": 285, "IGHV2-70*01": 288, "IGHV3-7*01": 285, "IGHV4-39*01": 288}, "tryp-positions": {"IGHJ4*02": 14, "IGHJ3*02": 16, "IGHJ6*02": 29, "IGHJ5*02": 17}}, "partitions": [{"logprob": -Infinity, "n_clusters": 25, "n_procs": 3, "partition": [["09f5010bd3-igh", "eee6809ad6-igh"], ["14195e4958-igh"], ["3c5f4c778a-igh"], ["453132f3ab-igh"], ["7334912e1e-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["d1ee7f9ce6-igh"], ["ddcf0ca433-igh"], ["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["4d37fe487e-igh"], ["52387a89c7-igh"], ["bc11af4843-igh"], ["eee2c7797d-igh"], ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh"], ["28ce45b82a-igh"], ["3542bd38d8-igh"], ["665985d2d1-igh"], ["9ed10b6475-igh"], ["b997fa9304-igh"], ["db63559ea9-igh"], ["e11acbe3ab-igh"], ["f094dfd68a-igh"]]}, {"logprob": -Infinity, "n_clusters": 24, "n_procs": 3, "partition": [["09f5010bd3-igh", "eee6809ad6-igh"], ["14195e4958-igh"], ["3c5f4c778a-igh"], ["453132f3ab-igh"], ["7334912e1e-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["d1ee7f9ce6-igh"], ["ddcf0ca433-igh"], ["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["4d37fe487e-igh"], ["52387a89c7-igh"], ["bc11af4843-igh"], ["eee2c7797d-igh"], ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh", "9ed10b6475-igh"], ["28ce45b82a-igh"], ["3542bd38d8-igh"], ["665985d2d1-igh"], ["b997fa9304-igh"], ["db63559ea9-igh"], ["e11acbe3ab-igh"], ["f094dfd68a-igh"]]}, {"logprob": -Infinity, "n_clusters": 23, "n_procs": 2, "partition": [["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["3542bd38d8-igh"], ["453132f3ab-igh"], ["4d37fe487e-igh"], ["52387a89c7-igh"], ["665985d2d1-igh"], ["7334912e1e-igh"], ["d1ee7f9ce6-igh"], ["db63559ea9-igh"], ["e11acbe3ab-igh"], ["eee2c7797d-igh"], ["09f5010bd3-igh", "eee6809ad6-igh"], ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh", "9ed10b6475-igh"], ["14195e4958-igh"], ["28ce45b82a-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["3c5f4c778a-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["b997fa9304-igh", "f094dfd68a-igh"], ["bc11af4843-igh"], ["ddcf0ca433-igh"]]}, {"logprob": -Infinity, "n_clusters": 22, "n_procs": 2, "partition": [["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["3542bd38d8-igh"], ["453132f3ab-igh"], ["4d37fe487e-igh"], ["52387a89c7-igh"], ["665985d2d1-igh", "d1ee7f9ce6-igh"], ["7334912e1e-igh"], ["db63559ea9-igh"], ["e11acbe3ab-igh"], ["eee2c7797d-igh"], ["09f5010bd3-igh", "eee6809ad6-igh"], ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh", "9ed10b6475-igh"], ["14195e4958-igh"], ["28ce45b82a-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["3c5f4c778a-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["b997fa9304-igh", "f094dfd68a-igh"], ["bc11af4843-igh"], ["ddcf0ca433-igh"]]}, {"logprob": -Infinity, "n_clusters": 21, "n_procs": 2, "partition": [["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["3542bd38d8-igh"], ["453132f3ab-igh"], ["4d37fe487e-igh"], ["52387a89c7-igh"], ["665985d2d1-igh", "d1ee7f9ce6-igh"], ["7334912e1e-igh"], ["db63559ea9-igh"], ["e11acbe3ab-igh", "eee2c7797d-igh"], ["09f5010bd3-igh", "eee6809ad6-igh"], ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh", "9ed10b6475-igh"], ["14195e4958-igh"], ["28ce45b82a-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["3c5f4c778a-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["b997fa9304-igh", "f094dfd68a-igh"], ["bc11af4843-igh"], ["ddcf0ca433-igh"]]}, {"logprob": -3493.5894217023615, "n_clusters": 20, "n_procs": 1, "partition": [["09f5010bd3-igh", "eee6809ad6-igh"], ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh", "9ed10b6475-igh", "ddcf0ca433-igh"], ["14195e4958-igh"], ["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["28ce45b82a-igh"], ["3542bd38d8-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["3c5f4c778a-igh"], ["453132f3ab-igh"], ["4d37fe487e-igh"], ["52387a89c7-igh"], ["665985d2d1-igh", "d1ee7f9ce6-igh"], ["7334912e1e-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["b997fa9304-igh", "f094dfd68a-igh"], ["bc11af4843-igh"], ["db63559ea9-igh"], ["e11acbe3ab-igh", "eee2c7797d-igh"]]}, {"logprob": -3464.3298016719564, "n_clusters": 19, "n_procs": 1, "partition": [["09f5010bd3-igh", "eee6809ad6-igh"], ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh", "9ed10b6475-igh", "ddcf0ca433-igh"], ["14195e4958-igh"], ["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["28ce45b82a-igh"], ["3542bd38d8-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["3c5f4c778a-igh"], ["453132f3ab-igh"], ["4d37fe487e-igh"], ["52387a89c7-igh"], ["665985d2d1-igh", "d1ee7f9ce6-igh"], ["7334912e1e-igh", "b997fa9304-igh", "f094dfd68a-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["bc11af4843-igh"], ["db63559ea9-igh"], ["e11acbe3ab-igh", "eee2c7797d-igh"]]}, {"logprob": -3440.746637637255, "n_clusters": 18, "n_procs": 1, "partition": [["09f5010bd3-igh", "eee6809ad6-igh"], ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh", "9ed10b6475-igh", "ddcf0ca433-igh", "4d37fe487e-igh"], ["14195e4958-igh"], ["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["28ce45b82a-igh"], ["3542bd38d8-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["3c5f4c778a-igh"], ["453132f3ab-igh"], ["52387a89c7-igh"], ["665985d2d1-igh", "d1ee7f9ce6-igh"], ["7334912e1e-igh", "b997fa9304-igh", "f094dfd68a-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["bc11af4843-igh"], ["db63559ea9-igh"], ["e11acbe3ab-igh", "eee2c7797d-igh"]]}, {"logprob": -3421.3381928933522, "n_clusters": 17, "n_procs": 1, "partition": [["09f5010bd3-igh", "eee6809ad6-igh"], ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh", "9ed10b6475-igh", "ddcf0ca433-igh", "4d37fe487e-igh"], ["14195e4958-igh", "e11acbe3ab-igh", "eee2c7797d-igh"], ["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["28ce45b82a-igh"], ["3542bd38d8-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["3c5f4c778a-igh"], ["453132f3ab-igh"], ["52387a89c7-igh"], ["665985d2d1-igh", "d1ee7f9ce6-igh"], ["7334912e1e-igh", "b997fa9304-igh", "f094dfd68a-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["bc11af4843-igh"], ["db63559ea9-igh"]]}, {"logprob": -3402.5441384589203, "n_clusters": 16, "n_procs": 1, "partition": [["09f5010bd3-igh", "eee6809ad6-igh"], ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh", "9ed10b6475-igh", "ddcf0ca433-igh", "4d37fe487e-igh"], ["14195e4958-igh", "e11acbe3ab-igh", "eee2c7797d-igh"], ["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["28ce45b82a-igh"], ["3542bd38d8-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["3c5f4c778a-igh"], ["453132f3ab-igh", "7334912e1e-igh", "b997fa9304-igh", "f094dfd68a-igh"], ["52387a89c7-igh"], ["665985d2d1-igh", "d1ee7f9ce6-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["bc11af4843-igh"], ["db63559ea9-igh"]]}], "events": [{"has_shm_indels": [false, true, true, false, false, false], "qr_gap_seqs": ["", "CAGCTGCAGCAGCAGGAGTCGGGCCCAAGGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGCCCCCAGGTAAGGGGCTGGACTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCAGTCTCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCTCCTACTTCCATCGCTCGCGACTACTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "CAGCTGCAGCAGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGACCCCAGGTAAGGGGCTGGAGTGGATTGGGACTATCTATTACATTACTGGGAGCACCTACTACGACCAGTCCCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCACCTACTTCCATCGCTCGAGACTTCTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "", "", ""], "gl_gap_seqs": ["", "CAGCTGCAGCTGCAGGAGTCGGGCCCA..GGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGCGAGCAATGTATAGCAGTACCTCCTACTTCCATCGCTCGGGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTA...TAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGCGAGCAATGTATAGCAGTACCTCCTACTTCCATCGCTCGGGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "", "", ""], "indel_reversed_seqs": ["", "CAGCTGCAGCAGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGCCCCCAGGTAAGGGGCTGGACTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCAGTCTCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCTCCTACTTCCATCGCTCGCGACTACTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "CAGCTGCAGCAGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGACCCCAGGTAAGGGGCTGGAGTGGATTGGGACTATCTATTATACTGGGAGCACCTACTACGACCAGTCCCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCACCTACTTCCATCGCTCGAGACTTCTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "", "", ""], "unique_ids": ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh", "9ed10b6475-igh", "ddcf0ca433-igh", "4d37fe487e-igh"], "invalid": false, "v_gene": "IGHV4-39*01", "d_gene": "IGHD6-19*01", "j_gene": "IGHJ4*02", "cdr3_length": 57, "mut_freqs": [0.08244680851063829, 0.06648936170212766, 0.07712765957446809, 0.07180851063829788, 0.06382978723404255, 0.0851063829787234], "n_mutations": [31, 25, 29, 27, 24, 32], "input_seqs": ["CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGAAGTAGTAGTTCCTACTGGGGCCGGATCCGCCAGCCCCCAGGTAAGGGGGTGGAGTGGATTGGGAGTATCTATGATAGTGGTAGCACCTACTATAACCAGTCCCTCAAGAGTCGAGTCACCATATCTGTAGACGCGTCCAAGAAGCAGTTCTCCCTGAAGCTGAGCTCTGTGCCCGCCGCAGACACGGCTGCGTATTACTGTGCGAGAGAGTTGTGTATAGCAGTGCTTCTTGCTTGGATAGCCCCGGACTACTGGGGCTAGGGAACCCTGGTCACCGTCTCCTCTG", "CAGCTGCAGCAGCAGGAGTCGGGCCCAAGGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGCCCCCAGGTAAGGGGCTGGACTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCAGTCTCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCTCCTACTTCCATCGCTCGCGACTACTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "CAGCTGCAGCAGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGACCCCAGGTAAGGGGCTGGAGTGGATTGGGACTATCTATTACATTACTGGGAGCACCTACTACGACCAGTCCCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCACCTACTTCCATCGCTCGAGACTTCTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "CAGCTGCAGCTGCAGGAGTCGAGCCCAGGACTGGTGATGCCTTCGGAGACCTTGTCCCTCACCTGCACTGTCTGTGGTGGCTCCATCAGCAGTAGTAGTTACGACTGGGGCTTGATCCGCCAGCCCCCAGGTAAGGGGCTGGAGTGGCTTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCAGTCCCTCAAGAGTCGATTCACCATATCCGTAGAGCCGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCCGACACGGCTGCGTATTACTGTCCGAGTTAGCTTTGAATAGCAGTCCCTCGTACTTCGATATCACCGGACTACTGGGACAAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTGTCCCTCACCTGCACTGTCTCTGTTGGCTCCATCAGCAGAAGTAGTTACTACTGCGGCCCGATCCGCCAGCCCCCAGGTAAGGGGCTGGAGTGGATTCGGAGTATCTATTATAGTGGGAGCACCTACTACATCCAGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGCGTATTACTGTGCGAGCCAGCCTTGCATATCAGTACCTCCTACAAAACTCTCGCAAGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGCTGCAGCTGCAGGAGTCGAACCCAGGACTGGTGATGCCTTCGGAGACCTTGTCCCTCACCTGCACTGTCTATGGTGGCTCCATCACCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGTAAGGGGCTGGAGTGGCTTGGGAGTATCTCTTATAGTGGGAGCACATACTACAACCAGTCACTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCATGAACCAGTTCTCCCTGAAGCTGAGCTCTGTCACCGCCGCAGACACGGCTGCGTCTTACTGTGCGAGCCTGCCTAGAAGAGAAGTACCTCTTTATAAGATAGCTCAAGACTACTGGGACCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGCCAGCCATGTATAGCAGTACCTCGTACTTCGATCGCGCGGGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], []], "leader_seqs": ["", "", "", "", "", ""], "c_gene_seqs": ["", "", "", "", "", ""], "v_per_gene_support": {"IGHV4-39*01": 1.0}, "d_per_gene_support": {"IGHD6-19*01": 0.9456254982377194, "IGHD6-6*01": 0.04680292080922609, "IGHD3-16*03": 0.003965522448316815, "IGHD2-15*01": 0.0015523293533072529, "IGHD1-14*01": 0.0011434929983126097, "IGHD2-2*01": 0.0009096572592806904, "IGHD3-9*01": 5.788938742915071e-07}, "j_per_gene_support": {"IGHJ4*02": 0.99998838034643, "IGHJ5*02": 1.1619653576005917e-05}, "v_3p_del": 3, "d_5p_del": 2, "d_3p_del": 9, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCAGCCAT", "dj_insertion": "ACCTCGTACTTCGATCGCGCGG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true], "stops": [true, false, false, true, false, false], "paired-uids": [["0eb272ee70-igl"], ["b02ee7754a-igl"], ["b1e56e40a1-igl"], ["7d4166ae48-igh"], ["ddcf0ca433-igl"], ["4d37fe487e-igl"]], "loci": ["igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 342}}, {"has_shm_indels": [false, false, false, true], "qr_gap_seqs": ["", "", "", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCAGTGTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "gl_gap_seqs": ["", "", "", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATC....TCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "indel_reversed_seqs": ["", "", "", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "unique_ids": ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD7-27*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.00558659217877095, 0.00558659217877095, 0.0, 0.0], "n_mutations": [2, 2, 0, 0], "input_seqs": ["CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACGCCGAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACGCCGAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCAGTGTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], []], "leader_seqs": ["", "", "", ""], "c_gene_seqs": ["", "", "", ""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD7-27*01": 0.9994071697062724, "IGHD1-1*01": 0.000592639063546231, "IGHD3-9*01": 1.912301795238332e-07}, "j_per_gene_support": {"IGHJ4*02": 0.9999984857851654, "IGHJ5*02": 1.5142148347827593e-06}, "v_3p_del": 0, "d_5p_del": 2, "d_3p_del": 0, "j_5p_del": 7, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCCC", "dj_insertion": "CGT", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false], "in_frames": [true, true, true, true], "stops": [false, false, false, false], "paired-uids": [["35fc655801-igk"], ["57537e5f22-igh", "57537e5f22-igl", "7ba384a461-igk"], ["9ed10b6475-igh"], ["09f5010bd3-igh", "09f5010bd3-igl", "cfe3b29587-igk"]], "loci": ["igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false, false, false, false], "qr_gap_seqs": ["", "", "", ""], "gl_gap_seqs": ["", "", "", ""], "indel_reversed_seqs": ["", "", "", ""], "unique_ids": ["453132f3ab-igh", "7334912e1e-igh", "b997fa9304-igh", "f094dfd68a-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD1-14*01", "j_gene": "IGHJ6*02", "cdr3_length": 54, "mut_freqs": [0.03513513513513514, 0.03783783783783784, 0.024324324324324326, 0.032432432432432434], "n_mutations": [13, 14, 9, 12], "input_seqs": ["NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACCCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGTCATGGACTGGGTCCGCCAGGCACCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAACAGGCAGCGGAACCAGAACTTTCCTACGGTATAGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTAGGAGGTCCCTGAGACTCTCCTTTTCAGCGTCTGGATTCACCTTCAGTAGGTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCATACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGTTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGTCCCGGCTGTGTATTACTGTGCGAGAGAGCCGGAACTGGTAGCACTAGTTCCCTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "NNNCTGGTTCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGAATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATCTGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGGGGACACGGCTGTGTATTACTGTGCGAGAGAGCCGACACAGGAACCACGAGTTCGCTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGGTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGGAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGTCACGGCTGTGGATTACTGTGCGAGAGGGCCGGCACCGGAACCGCTACTTACCTACGGTATGGACGTCTGGGGCCAAGGGACCACGGGCACCGTCTCCTCAG"], "naive_seq": "NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGCCGGAACCGGAACCACGAGTTTGCTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], []], "leader_seqs": ["", "", "", ""], "c_gene_seqs": ["", "", "", ""], "v_per_gene_support": {"IGHV3-33*01": 1.0}, "d_per_gene_support": {"IGHD1-14*01": 0.9999976766879956, "IGHD1-1*01": 1.6037445435736297e-06, "IGHD6-19*01": 3.624470931209077e-07, "IGHD2-15*01": 3.433366709190294e-07, "IGHD1-26*01": 1.3783696953904691e-08}, "j_per_gene_support": {"IGHJ6*02": 1.0}, "v_3p_del": 0, "d_5p_del": 5, "d_3p_del": 0, "j_5p_del": 13, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GCCGG", "dj_insertion": "GAGTTTG", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false, false, false, false], "in_frames": [true, true, true, true], "stops": [false, false, false, false], "paired-uids": [["453132f3ab-igk"], ["7334912e1e-igk"], [], ["21cea6e4d0-igh", "21cea6e4d0-igl", "f094dfd68a-igk"]], "loci": ["igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 339}}, {"has_shm_indels": [true, false, false], "qr_gap_seqs": ["NNNTTGGTGCAGCTGGTGGAGTCTGGGAGTGTATGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGGCTCTCATGGGCAGCCTCTGGATTCACCTTTACTAGCTATTTGATGAGCTGGGTTGGCCAGGCTCCAGGGAAGGGGCTGGAGTGCGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACTACTCTCCAGAGACAACGCCAAGAACTCACTGTATGTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGGTCCATCCCCTGGTGGTCCTGTGTGGGGTGACTACTGGGGCCAGGGAATCCTGGTCACCGTCTCCTCAG", "", ""], "gl_gap_seqs": ["NNNGAGGTGCAGCTGGTGGAGTCTGG........GGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCA.TCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGACCAATCCGCTAGTGGTCTTGGGCGGGGTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "", ""], "indel_reversed_seqs": ["NNNTTGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGGCTCTCATGGGCAGCCTCTGGATTCACCTTTACTAGCTATTTGATGAGCTGGGTTGGCCAGGCTCCAGGGAAGGGGCTGGAGTGCGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACTATCTCCAGAGACAACGCCAAGAACTCACTGTATGTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGGTCCATCCCCTGGTGGTCCTGTGTGGGGTGACTACTGGGGCCAGGGAATCCTGGTCACCGTCTCCTCAG", "", ""], "unique_ids": ["14195e4958-igh", "e11acbe3ab-igh", "eee2c7797d-igh"], "invalid": false, "v_gene": "IGHV3-7*01", "d_gene": "IGHD2-15*01", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.057692307692307696, 0.027472527472527472, 0.0521978021978022], "n_mutations": [21, 10, 19], "input_seqs": ["NNNTTGGTGCAGCTGGTGGAGTCTGGGAGTGTATGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGGCTCTCATGGGCAGCCTCTGGATTCACCTTTACTAGCTATTTGATGAGCTGGGTTGGCCAGGCTCCAGGGAAGGGGCTGGAGTGCGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACTACTCTCCAGAGACAACGCCAAGAACTCACTGTATGTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGGTCCATCCCCTGGTGGTCCTGTGTGGGGTGACTACTGGGGCCAGGGAATCCTGGTCACCGTCTCCTCAG", "NNNTAGGTGCAGCCGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTACTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGTGGCTGGAGTGTGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCAGCTCCAGAGACAACACCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACCCGGCTGTGTATTACTGTGCGAGAGACCAATCTGCTAGTGGTCTTGGGCGGGGTGACTACTGGGGCCAGGGAAGCCTGGTCACCGTCTCCTCAG", "NNNTAGGTGCAGCGGGTGGAGTATGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGAGCAGCCTCTGGATTCACCTTTACTAGCTATTGGATGAGCTGGGTCGGCCAGGCTCCAGGGAAGGGGCTGGAGTGTGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGCACTCTGTGAAGGGCCGACTCACCAGCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAATTGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGCAACCGGCTAGTGGTGTTTGGCGGGCTGAATACTGGGGCCAGGGAAGCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGACCAATCCGCTAGTGGTCTTGGGCGGGGTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], []], "leader_seqs": ["", "", ""], "c_gene_seqs": ["", "", ""], "v_per_gene_support": {"IGHV3-7*01": 1.0}, "d_per_gene_support": {"IGHD2-15*01": 0.7079306106414498, "IGHD3-3*01": 0.19490243135535493, "IGHD2-8*02": 0.09356104222735327, "IGHD1-26*01": 0.003469068386231306, "IGHD2-8*01": 0.0001368473895861747}, "j_per_gene_support": {"IGHJ4*02": 0.9999999971969373, "IGHJ5*02": 2.8030744541646952e-09}, "v_3p_del": 0, "d_5p_del": 9, "d_3p_del": 15, "j_5p_del": 7, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCAATCCGC", "dj_insertion": "CTTGGGCGGGG", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false, false, false], "in_frames": [true, true, true], "stops": [true, true, true], "paired-uids": [["14195e4958-igl", "d5ddf0c2ec-igl"], ["db63559ea9-igh", "db63559ea9-igk"], ["52387a89c7-igh", "52387a89c7-igk"]], "loci": ["igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 333}}, {"has_shm_indels": [true, false], "qr_gap_seqs": ["NNNCAGGTCCAGCTGCTGCAGCCTGGGGCTGAGCTGAAGAAGC............TGCAGGTCTCCTGCAAGGCTTCTGGAGGCACGTTCAGCAGCTTTGCTATCAACTGGGTGAGACAGGCCCCTGGACAAGGGCTTAGGGAGGTCAGGTAGGAGTGGATGGGAAGGATCATCCCTATCCGTGGTATAGCAAACTTCGCACAGAAGTTTCAGGGTGGAGTCACGATTCCCGCGGAAAAATCCACGATGCCAGCCTACATGGAGGTAAGCAGCCTTAGATCCGAGGACACGCTCGTGTATTACTGTGAGAGCCACCACGAGTTATGTCATAAAAATTACTTTGACTATTGGGGCCAGGGAACCCTGGTCACCGTTTGCTCAG", ""], "gl_gap_seqs": ["NNNCAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTT...............GAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGCCGCCACGCGTTATACCATAAAACTTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", ""], "indel_reversed_seqs": ["NNNCAGGTCCAGCTGCTGCAGCCTGGGGCTGAGCTGAAGAAGCCTGGGTCCTCGGTGCAGGTCTCCTGCAAGGCTTCTGGAGGCACGTTCAGCAGCTTTGCTATCAACTGGGTGAGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCGTGGTATAGCAAACTTCGCACAGAAGTTTCAGGGTGGAGTCACGATTCCCGCGGAAAAATCCACGATGCCAGCCTACATGGAGGTAAGCAGCCTTAGATCCGAGGACACGCTCGTGTATTACTGTGAGAGCCACCACGAGTTATGTCATAAAAATTACTTTGACTATTGGGGCCAGGGAACCCTGGTCACCGTTTGCTCAG", ""], "unique_ids": ["09f5010bd3-igh", "eee6809ad6-igh"], "invalid": false, "v_gene": "IGHV1-69*04", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.09065934065934066, 0.09065934065934066], "n_mutations": [33, 33], "input_seqs": ["NNNCAGGTCCAGCTGCTGCAGCCTGGGGCTGAGCTGAAGAAGCTGCAGGTCTCCTGCAAGGCTTCTGGAGGCACGTTCAGCAGCTTTGCTATCAACTGGGTGAGACAGGCCCCTGGACAAGGGCTTAGGGAGGTCAGGTAGGAGTGGATGGGAAGGATCATCCCTATCCGTGGTATAGCAAACTTCGCACAGAAGTTTCAGGGTGGAGTCACGATTCCCGCGGAAAAATCCACGATGCCAGCCTACATGGAGGTAAGCAGCCTTAGATCCGAGGACACGCTCGTGTATTACTGTGAGAGCCACCACGAGTTATGTCATAAAAATTACTTTGACTATTGGGGCCAGGGAACCCTGGTCACCGTTTGCTCAG", "NNNCAGGTCGAGCTGCTGCAGCCTGGGGCTGAGCTGAAGAAGCCTGGGGCCTCGCTGCAGGTCTCCTGCAAGGCTTCTGGAGGCACGTTCAGCAGCTTTGCTATCAACTGGGTGAGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCTGTGGTATAGCAAACTTCGCACAGAAGTTTCAGGGTTGAGTCACGATTCCCGCGGAAAAATCCACGATGCCAGCCTACATGGAGCTAAGCAGCCTGAGATCCGAGGACACGGTCGTGTATAACTGTGAGAGCCGCAACACGTTATATCATAAAACTAACTTTGACTATTGGGGCCAGGGAACCCTGGTCACCGTTTCCTCAG"], "naive_seq": "NNNCAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGCCGCCACGCGTTATACCATAAAACTTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], []], "leader_seqs": ["", ""], "c_gene_seqs": ["", ""], "v_per_gene_support": {"IGHV1-69*04": 1.0}, "d_per_gene_support": {"IGHD3-16*03": 0.9336685372120426, "IGHD3-3*01": 0.06559880570253065, "IGHD3-9*01": 0.0007326570854398782}, "j_per_gene_support": {"IGHJ4*02": 0.9999999999985789, "IGHJ5*02": 1.4021616982191138e-12}, "v_3p_del": 3, "d_5p_del": 28, "d_3p_del": 0, "j_5p_del": 3, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCGCCACG", "dj_insertion": "ATAAAACTT", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false, false], "in_frames": [true, true], "stops": [true, true], "paired-uids": [["09f5010bd3-igl", "cfe3b29587-igh", "cfe3b29587-igk"], ["bc11af4843-igh", "bc11af4843-igk", "eee6809ad6-igl"]], "loci": ["igh", "igh"], "codon_positions": {"v": 288, "j": 333}}, {"has_shm_indels": [true, false], "qr_gap_seqs": ["NNNTAGGTGCAGCTGGTGGAGTCTGGAGGAGGCTTGGTCCAGCCTGGGGGTTCCCTGAGACTCTCCTGTGCAACCTCTGGATTCACCTTTAGTAGCTATT.GATGAGCAGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAATGGTTGGCCAACATAAAGTAAGATGGAAGTGAGAAATACTATCTGGACTCTGTGAAGGGCCGACTTACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAGCAGCCTGAGAGCCGAGGTCACGGCTGTGTATTACTGTGCGAGAGAGAATTCCGCTAGTGGACCTGTTATCGGTGACTCCTGGGGCCAGGGATTCCTGGTCTCCGTCTCCTCAG", ""], "gl_gap_seqs": ["NNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGGGTCCCGCCAGTGCACCTGATACCGGTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", ""], "indel_reversed_seqs": ["NNNTAGGTGCAGCTGGTGGAGTCTGGAGGAGGCTTGGTCCAGCCTGGGGGTTCCCTGAGACTCTCCTGTGCAACCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCAGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAATGGTTGGCCAACATAAAGTAAGATGGAAGTGAGAAATACTATCTGGACTCTGTGAAGGGCCGACTTACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAGCAGCCTGAGAGCCGAGGTCACGGCTGTGTATTACTGTGCGAGAGAGAATTCCGCTAGTGGACCTGTTATCGGTGACTCCTGGGGCCAGGGATTCCTGGTCTCCGTCTCCTCAG", ""], "unique_ids": ["21cea6e4d0-igh", "57537e5f22-igh"], "invalid": false, "v_gene": "IGHV3-7*01", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.06593406593406594, 0.06318681318681318], "n_mutations": [24, 23], "input_seqs": ["NNNTAGGTGCAGCTGGTGGAGTCTGGAGGAGGCTTGGTCCAGCCTGGGGGTTCCCTGAGACTCTCCTGTGCAACCTCTGGATTCACCTTTAGTAGCTATTGATGAGCAGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAATGGTTGGCCAACATAAAGTAAGATGGAAGTGAGAAATACTATCTGGACTCTGTGAAGGGCCGACTTACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAGCAGCCTGAGAGCCGAGGTCACGGCTGTGTATTACTGTGCGAGAGAGAATTCCGCTAGTGGACCTGTTATCGGTGACTCCTGGGGCCAGGGATTCCTGGTCTCCGTCTCCTCAG", "NNNTAGGTGCAGCTTGTGGAGTCTGGAGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCATGTGCAGCCTCTCGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGGTCCAGGGAAGGGGCTGGAGTGGGTGGCCGAGATAAAGCAAGATGGTAGTCAGAAATACTATCTGGACTCACTGAAGGGCCGATTCACCAACTCCAGAGACAACGCCAAGACCTCACTGTATCTGCAAATGAGCAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGGGGGTCCCGCCATTGCAACTGACACCGGTGACTACTGGGGCCAGGCAATCCTGGGCACCGTCTCCTCAG"], "naive_seq": "NNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGGGTCCCGCCAGTGCACCTGATACCGGTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], []], "leader_seqs": ["", ""], "c_gene_seqs": ["", ""], "v_per_gene_support": {"IGHV3-7*01": 1.0}, "d_per_gene_support": {"IGHD3-16*03": 0.7677680346276209, "IGHD1-1*01": 0.23028015877168076, "IGHD6-6*01": 0.0012800212115014128, "IGHD1-26*01": 0.0006717853892368645}, "j_per_gene_support": {"IGHJ4*02": 0.9999992505751117, "IGHJ5*02": 7.494248813636061e-07}, "v_3p_del": 0, "d_5p_del": 32, "d_3p_del": 0, "j_5p_del": 7, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GGGTCCCGCCAGTGCACCTG", "dj_insertion": "GG", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false, false], "in_frames": [false, true], "stops": [true, true], "paired-uids": [["21cea6e4d0-igl", "f094dfd68a-igh", "f094dfd68a-igk"], ["57537e5f22-igl", "7ba384a461-igh", "7ba384a461-igk"]], "loci": ["igh", "igh"], "codon_positions": {"v": 288, "j": 333}}, {"has_shm_indels": [false, false], "qr_gap_seqs": ["", ""], "gl_gap_seqs": ["", ""], "indel_reversed_seqs": ["", ""], "unique_ids": ["665985d2d1-igh", "d1ee7f9ce6-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD6-19*01", "j_gene": "IGHJ5*02", "cdr3_length": 66, "mut_freqs": [0.015706806282722512, 0.01832460732984293], "n_mutations": [6, 7], "input_seqs": ["NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCACCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCATCTGGATTCACCGTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGAATTACTGTGCGAGAGAGGCTGGGTTAGATTTTGGGTTTGGTTAGTGTGCGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCACCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCATCTGGATTCACCGTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGAATTACTGTGCGAGAGAGGCTGGGTGAGATTTTGGGTTTGCTTACTATGGGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGGCTGGGTGAGATTTTGGGTTTGGTTAGTGTGGGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], []], "leader_seqs": ["", ""], "c_gene_seqs": ["", ""], "v_per_gene_support": {"IGHV3-33*01": 1.0}, "d_per_gene_support": {"IGHD6-19*01": 0.5498427718139053, "IGHD3-3*01": 0.4188548198724743, "IGHD3-16*03": 0.028855233142586194, "IGHD3-9*01": 0.002447175171016475}, "j_per_gene_support": {"IGHJ5*02": 1.0}, "v_3p_del": 0, "d_5p_del": 12, "d_3p_del": 3, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "GTGAGATTTTGGGTTTGGTTAGTGTGGGA", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false, false], "in_frames": [true, true], "stops": [true, true], "paired-uids": [["665985d2d1-igk"], ["d1ee7f9ce6-igk"]], "loci": ["igh", "igh"], "codon_positions": {"v": 288, "j": 351}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["276733008f-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD2-8*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.05865921787709497], "n_mutations": [21], "input_seqs": ["CAGGTCACCTTGAGGGCGTCTGGTCCTGCGCTGCTGAAACCCACAAAGACCCTCACACTTACCTGCACCTTCTCTGGGTTCCCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGCGATGATCATAAATATTATACCACATCTCTTAAGACCCGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCCTACATTGACCAACATGGACCCTGTGAACACAGCCACGTATTACTGTGCACGGATACTCTCTACTATTGGTTTTGTTTACTGGGGCCAGGGTACCCTGGTCACCCTCTCCTCAG"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTCTGTACTAATGGTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD2-8*01": 0.9667034825003873, "IGHD1-26*01": 0.033296517499616006}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "v_3p_del": 0, "d_5p_del": 7, "d_3p_del": 12, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TC", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["276733008f-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["28ce45b82a-igh"], "invalid": false, "v_gene": "IGHV1-69*04", "d_gene": "IGHD1-26*01", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["NNNCAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGCGTATAGTGGGAGCTACTACTTACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNCAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGCGTATAGTGGGAGCTACTACTTACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV1-69*04": 1.0}, "d_per_gene_support": {"IGHD1-26*01": 0.9999999957069079, "IGHD2-15*01": 4.293090340313514e-09}, "j_per_gene_support": {"IGHJ4*02": 0.999999999857998, "IGHJ5*02": 1.4200256428546358e-10}, "v_3p_del": 3, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GC", "dj_insertion": "TT", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["28ce45b82a-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 333}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["3542bd38d8-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD3-3*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.0782122905027933], "n_mutations": [28], "input_seqs": ["CCGGTCACCTTGAGGGAGTCTGGTCCCGCGCTGGTTAAACCCACACAGACCCTCACACTGACCTGCAACTTCTCTGGGCTCTCACTCAGCACTAGTGTAATGCGTGTGAGCTGGATCCGTCAGCCCCCAAGGAAGGCCCTGGAGTGGGATGCACTCATTGTTTGGGATGATCATATATACTACAGCACATCTCTGAAGACCAGGCTCACTATCTCCAAGGACACCTCCACAAACCCGGTGGTCCTTACAATGACCAACATGGTCCCTGTGGATACAGCCACGTATTACTGTGCACTGATACTCGCGAATTTGGATTTAGATTACTGGGGCCACGGAACTCTGTTCACCGTCTCCTCAA"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTCGCGATTTTTGACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD3-3*01": 0.6787543160763233, "IGHD3-16*03": 0.3080937839866766, "IGHD3-9*01": 0.01315189993699562}, "j_per_gene_support": {"IGHJ4*02": 0.9999702470345994, "IGHJ5*02": 2.9752965406579544e-05}, "v_3p_del": 0, "d_5p_del": 6, "d_3p_del": 16, "j_5p_del": 3, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TCG", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["3542bd38d8-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["3c5f4c778a-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD1-1*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.04748603351955307], "n_mutations": [17], "input_seqs": ["CAGGTCACCTTGAGGGCGTCTGGTCCTCCGCTGCTGAAACCCACAAAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCCCACTCAGCACGAGTGGAATGTGTGTGAGCTGGATCCTTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTCATTGGGATGCTCATAAATACTACAGCACATCTCTGAAGACCAAGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACCTGGACCCTGTGAACACAGCCACGTATTACTGTGCACGGATACTCCCAACTGTCGGTTTTGATTACTGGGGCCAGGGCACCCTGGTCACCCTCTCCTCAA"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTCCCAACTGTCGGTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD1-1*01": 0.488415118115327, "IGHD7-27*01": 0.48029125259610855, "IGHD2-8*02": 0.01633765712142096, "IGHD2-2*01": 0.014955972167129735}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "v_3p_del": 0, "d_5p_del": 4, "d_3p_del": 7, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TCC", "dj_insertion": "TCGGT", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["3c5f4c778a-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["52387a89c7-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD3-3*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.06424581005586592], "n_mutations": [23], "input_seqs": ["CCGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCTCTCAGCACTAGTGGCATGTGTGTGAGCTGGATCCGTCAGCCCGCAGGGCAGGCCCAGGAGGGGCTTGGACTCATTGATTGGGATGTTCATAAATACTACAGCACATCTCTGAGGAACAGGCTTACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATAACCAACATGGACCCTGTGGATACAGTAACGTATTACTGTGGACGGATACCCTCAATTTTGTACCTGGATTTCTGGGCCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCTCAATATTATACCTGGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD3-3*01": 0.8669773808407363, "IGHD2-15*01": 0.067760327762738, "IGHD2-2*01": 0.045746481764612115, "IGHD3-9*01": 0.019515809631929473}, "j_per_gene_support": {"IGHJ4*02": 0.9999776091998438, "IGHJ5*02": 2.2390800150116182e-05}, "v_3p_del": 0, "d_5p_del": 22, "d_3p_del": 0, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCTCAA", "dj_insertion": "TG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": 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"CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACACGATATTTTGACTGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD3-9*01": 0.9520465873464513, "IGHD1-26*01": 0.047953412653544795}, "j_per_gene_support": {"IGHJ4*02": 0.9986875587196622, "IGHJ5*02": 0.0013124412803428623}, "v_3p_del": 0, "d_5p_del": 5, "d_3p_del": 11, "j_5p_del": 6, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "paired-uids": [["789d880ef2-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["b9148494e2-igh"], "invalid": false, "v_gene": "IGHV1-2*02", "d_gene": "IGHD6-6*01", "j_gene": "IGHJ3*02", "cdr3_length": 63, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["NNNCAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCGGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAACCCTAACAGTGGTGGCACAAACTATGCACAGAAGTTTCAGGGCAGGGTCACCATGACCAGGGACACGTCCATCAGCACAGCCTACATGGAGCTGAGCAGGCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAACCGGACTGCTCTGTATAGCAGCTCGTCCCGATGGTGATGCTTTTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG"], "naive_seq": "NNNCAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCGGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAACCCTAACAGTGGTGGCACAAACTATGCACAGAAGTTTCAGGGCAGGGTCACCATGACCAGGGACACGTCCATCAGCACAGCCTACATGGAGCTGAGCAGGCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAACCGGACTGCTCTGTATAGCAGCTCGTCCCGATGGTGATGCTTTTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV1-2*02": 1.0}, "d_per_gene_support": {"IGHD6-6*01": 0.9999992854308881, "IGHD6-19*01": 6.887629223866832e-07, "IGHD2-15*01": 2.5806183206409083e-08}, "j_per_gene_support": {"IGHJ3*02": 1.0}, "v_3p_del": 2, "d_5p_del": 2, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "ACCGGACTGCTCT", "dj_insertion": "CGATGG", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["b9148494e2-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 348}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["bc11af4843-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD2-2*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.05865921787709497], "n_mutations": [21], "input_seqs": ["CAGGTCAGCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTGTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCAAGGGAAGGCCCTGGAGTGGCTTGCCCTCATTGATTGGGATGATCATAAATACTACAGCAGGACTGTGAAGACCAGGCTCACCATCTTCCAGTACACCTCCAGAAAACAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTATGCAGAGTCAGCTTTGATTGCTGGGGCCAGGGAAGCCTGGTCACCGTGTCCCCAG"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTATGCCGAGTCAACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD2-2*01": 0.5527021321579755, "IGHD2-8*01": 0.3428150937549728, "IGHD2-8*02": 0.10448277408704772}, "j_per_gene_support": {"IGHJ4*02": 0.9999953481550304, "IGHJ5*02": 4.65184495817866e-06}, "v_3p_del": 0, "d_5p_del": 25, "d_3p_del": 0, "j_5p_del": 3, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "GAGTCA", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["bc11af4843-igk", "eee6809ad6-igh", "eee6809ad6-igl"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["db63559ea9-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD2-8*01", "j_gene": "IGHJ4*02", "cdr3_length": 33, "mut_freqs": [0.07102272727272728], "n_mutations": [25], "input_seqs": ["CTGGTCACCTTGAGGGAGTTCGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTGCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGACAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGGACTCATTGATTGGGATGATCATAAATACTGCTGCGCAGCTCTGGCGACCAGGATCACCATCTCCAAGGACACCTCCAAGGACCAGCTGGTCCTTACAATGATCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTCATAATTGTGGACTTTTGGGGCCAGGGAACACTGGTTACCGTCTCCTCAG"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTACTAATGGTGGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD2-8*01": 1.0}, "j_per_gene_support": {"IGHJ4*02": 0.999984932524341, "IGHJ5*02": 1.5067475650940184e-05}, "v_3p_del": 0, "d_5p_del": 9, "d_3p_del": 11, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["db63559ea9-igk", "e11acbe3ab-igh"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 318}}]}
1
+ {"version-info": {"partis-yaml": 0.1, "partis-git": ""}, "germline-info": {"locus": "igh", "functionalities": {}, "seqs": {"v": {"IGHV1-2*02": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCGGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAACCCTAACAGTGGTGGCACAAACTATGCACAGAAGTTTCAGGGCAGGGTCACCATGACCAGGGACACGTCCATCAGCACAGCCTACATGGAGCTGAGCAGGCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-69*04": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV2-70*01": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATAC", "IGHV3-33*01": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-7*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV4-39*01": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGACA"}, "d": {"IGHD1-1*01": "GGTACAACTGGAACGAC", "IGHD1-14*01": "GGTATAACCGGAACCAC", "IGHD1-26*01": "GGTATAGTGGGAGCTACTAC", "IGHD2-15*01": "AGGATATTGTAGTGGTGGTAGCTGCTACTCC", "IGHD2-2*01": "AGGATATTGTAGTAGTACCAGCTGCTATGCC", "IGHD2-8*01": "AGGATATTGTACTAATGGTGTATGCTATACC", "IGHD2-8*02": "AGGATATTGTACTGGTGGTGTATGCTATACC", "IGHD3-16*03": "GTATTATGATTACATTTGGGGGAGTTATCGTTATACC", "IGHD3-3*01": "GTATTACGATTTTTGGAGTGGTTATTATACC", "IGHD3-9*01": "GTATTACGATATTTTGACTGGTTATTATAAC", "IGHD6-19*01": "GGGTATAGCAGTGGCTGGTAC", "IGHD6-6*01": "GAGTATAGCAGCTCGTCC", "IGHD7-27*01": "CTAACTGGGGA"}, "j": {"IGHJ3*02": "TGATGCTTTTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG", "IGHJ4*02": "ACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "IGHJ5*02": "ACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "IGHJ6*02": "ATTACTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"}}, "cyst-positions": {"IGHV1-69*04": 285, "IGHV1-2*02": 285, "IGHV3-33*01": 285, "IGHV2-70*01": 288, "IGHV3-7*01": 285, "IGHV4-39*01": 288}, "tryp-positions": {"IGHJ4*02": 14, "IGHJ3*02": 16, "IGHJ6*02": 29, "IGHJ5*02": 17}}, "partitions": [{"logprob": -Infinity, "n_clusters": 25, "n_procs": 3, "partition": [["09f5010bd3-igh", "eee6809ad6-igh"], ["14195e4958-igh"], ["3c5f4c778a-igh"], ["453132f3ab-igh"], ["7334912e1e-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["d1ee7f9ce6-igh"], ["ddcf0ca433-igh"], ["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["4d37fe487e-igh"], ["52387a89c7-igh"], ["bc11af4843-igh"], ["eee2c7797d-igh"], ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh"], ["28ce45b82a-igh"], 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"eee2c7797d-igh"], ["21cea6e4d0-igh", "57537e5f22-igh"], ["276733008f-igh"], ["28ce45b82a-igh"], ["3542bd38d8-igh"], ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], ["3c5f4c778a-igh"], ["453132f3ab-igh", "7334912e1e-igh", "b997fa9304-igh", "f094dfd68a-igh"], ["52387a89c7-igh"], ["665985d2d1-igh", "d1ee7f9ce6-igh"], ["789d880ef2-igh"], ["b9148494e2-igh"], ["bc11af4843-igh"], ["db63559ea9-igh"]]}], "events": [{"has_shm_indels": [false, true, true, false, false, false], "qr_gap_seqs": ["", "CAGCTGCAGCAGCAGGAGTCGGGCCCAAGGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGCCCCCAGGTAAGGGGCTGGACTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCAGTCTCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCTCCTACTTCCATCGCTCGCGACTACTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "CAGCTGCAGCAGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGACCCCAGGTAAGGGGCTGGAGTGGATTGGGACTATCTATTACATTACTGGGAGCACCTACTACGACCAGTCCCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCACCTACTTCCATCGCTCGAGACTTCTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "", "", ""], "gl_gap_seqs": ["", "CAGCTGCAGCTGCAGGAGTCGGGCCCA..GGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGCGAGCAATGTATAGCAGTACCTCCTACTTCCATCGCTCGGGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTA...TAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGCGAGCAATGTATAGCAGTACCTCCTACTTCCATCGCTCGGGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "", "", ""], "indel_reversed_seqs": ["", "CAGCTGCAGCAGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGCCCCCAGGTAAGGGGCTGGACTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCAGTCTCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCTCCTACTTCCATCGCTCGCGACTACTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "CAGCTGCAGCAGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGACCCCAGGTAAGGGGCTGGAGTGGATTGGGACTATCTATTATACTGGGAGCACCTACTACGACCAGTCCCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCACCTACTTCCATCGCTCGAGACTTCTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "", "", ""], "unique_ids": ["0eb272ee70-igh", "b02ee7754a-igh", "b1e56e40a1-igh", "9ed10b6475-igh", "ddcf0ca433-igh", "4d37fe487e-igh"], "invalid": false, "v_gene": "IGHV4-39*01", "d_gene": "IGHD6-19*01", "j_gene": "IGHJ4*02", "cdr3_length": 57, "mut_freqs": [0.08244680851063829, 0.06648936170212766, 0.07712765957446809, 0.07180851063829788, 0.06382978723404255, 0.0851063829787234], "n_mutations": [31, 25, 29, 27, 24, 32], "input_seqs": ["CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGAAGTAGTAGTTCCTACTGGGGCCGGATCCGCCAGCCCCCAGGTAAGGGGGTGGAGTGGATTGGGAGTATCTATGATAGTGGTAGCACCTACTATAACCAGTCCCTCAAGAGTCGAGTCACCATATCTGTAGACGCGTCCAAGAAGCAGTTCTCCCTGAAGCTGAGCTCTGTGCCCGCCGCAGACACGGCTGCGTATTACTGTGCGAGAGAGTTGTGTATAGCAGTGCTTCTTGCTTGGATAGCCCCGGACTACTGGGGCTAGGGAACCCTGGTCACCGTCTCCTCTG", "CAGCTGCAGCAGCAGGAGTCGGGCCCAAGGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGCCCCCAGGTAAGGGGCTGGACTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCAGTCTCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCTCCTACTTCCATCGCTCGCGACTACTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "CAGCTGCAGCAGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGACCCCAGGTAAGGGGCTGGAGTGGATTGGGACTATCTATTACATTACTGGGAGCACCTACTACGACCAGTCCCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCGAGCAATGTAAAACAGTACCACCTACTTCCATCGCTCGAGACTTCTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG", "CAGCTGCAGCTGCAGGAGTCGAGCCCAGGACTGGTGATGCCTTCGGAGACCTTGTCCCTCACCTGCACTGTCTGTGGTGGCTCCATCAGCAGTAGTAGTTACGACTGGGGCTTGATCCGCCAGCCCCCAGGTAAGGGGCTGGAGTGGCTTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCAGTCCCTCAAGAGTCGATTCACCATATCCGTAGAGCCGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCCGACACGGCTGCGTATTACTGTCCGAGTTAGCTTTGAATAGCAGTCCCTCGTACTTCGATATCACCGGACTACTGGGACAAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTGTCCCTCACCTGCACTGTCTCTGTTGGCTCCATCAGCAGAAGTAGTTACTACTGCGGCCCGATCCGCCAGCCCCCAGGTAAGGGGCTGGAGTGGATTCGGAGTATCTATTATAGTGGGAGCACCTACTACATCCAGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGCGTATTACTGTGCGAGCCAGCCTTGCATATCAGTACCTCCTACAAAACTCTCGCAAGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGCTGCAGCTGCAGGAGTCGAACCCAGGACTGGTGATGCCTTCGGAGACCTTGTCCCTCACCTGCACTGTCTATGGTGGCTCCATCACCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGTAAGGGGCTGGAGTGGCTTGGGAGTATCTCTTATAGTGGGAGCACATACTACAACCAGTCACTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCATGAACCAGTTCTCCCTGAAGCTGAGCTCTGTCACCGCCGCAGACACGGCTGCGTCTTACTGTGCGAGCCTGCCTAGAAGAGAAGTACCTCTTTATAAGATAGCTCAAGACTACTGGGACCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGCCAGCCATGTATAGCAGTACCTCGTACTTCGATCGCGCGGGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], []], "leader_seqs": ["", "", "", "", "", ""], "c_gene_seqs": ["", "", "", "", "", ""], "v_per_gene_support": {"IGHV4-39*01": 1.0}, "d_per_gene_support": {"IGHD6-19*01": 0.9456254982377194, "IGHD6-6*01": 0.04680292080922609, "IGHD3-16*03": 0.003965522448316815, "IGHD2-15*01": 0.0015523293533072529, "IGHD1-14*01": 0.0011434929983126097, "IGHD2-2*01": 0.0009096572592806904, "IGHD3-9*01": 5.788938742915071e-07}, "j_per_gene_support": {"IGHJ4*02": 0.99998838034643, "IGHJ5*02": 1.1619653576005917e-05}, "v_3p_del": 3, "d_5p_del": 2, "d_3p_del": 9, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCAGCCAT", "dj_insertion": "ACCTCGTACTTCGATCGCGCGG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true], "stops": [true, false, false, true, false, false], "paired-uids": [["0eb272ee70-igl"], ["b02ee7754a-igl"], ["b1e56e40a1-igl"], ["7d4166ae48-igh"], ["ddcf0ca433-igl"], ["4d37fe487e-igl"]], "loci": ["igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 342}}, {"has_shm_indels": [false, false, false, true], "qr_gap_seqs": ["", "", "", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCAGTGTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "gl_gap_seqs": ["", "", "", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATC....TCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "indel_reversed_seqs": ["", "", "", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "unique_ids": ["35fc655801-igh", "7ba384a461-igh", "7d4166ae48-igh", "cfe3b29587-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD7-27*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.00558659217877095, 0.00558659217877095, 0.0, 0.0], "n_mutations": [2, 2, 0, 0], "input_seqs": ["CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACGCCGAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACGCCGAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCAGTGTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCCCAACTGGGGACGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], []], "leader_seqs": ["", "", "", ""], "c_gene_seqs": ["", "", "", ""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD7-27*01": 0.9994071697062724, "IGHD1-1*01": 0.000592639063546231, "IGHD3-9*01": 1.912301795238332e-07}, "j_per_gene_support": {"IGHJ4*02": 0.9999984857851654, "IGHJ5*02": 1.5142148347827593e-06}, "v_3p_del": 0, "d_5p_del": 2, "d_3p_del": 0, "j_5p_del": 7, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCCC", "dj_insertion": "CGT", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false], "in_frames": [true, true, true, true], "stops": [false, false, false, false], "paired-uids": [["35fc655801-igk"], ["57537e5f22-igh", "57537e5f22-igl", "7ba384a461-igk"], ["9ed10b6475-igh"], ["09f5010bd3-igh", "09f5010bd3-igl", "cfe3b29587-igk"]], "loci": ["igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false, false, false, false], "qr_gap_seqs": ["", "", "", ""], "gl_gap_seqs": ["", "", "", ""], "indel_reversed_seqs": ["", "", "", ""], "unique_ids": ["453132f3ab-igh", "7334912e1e-igh", "b997fa9304-igh", "f094dfd68a-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD1-14*01", "j_gene": "IGHJ6*02", "cdr3_length": 54, "mut_freqs": [0.03513513513513514, 0.03783783783783784, 0.024324324324324326, 0.032432432432432434], "n_mutations": [13, 14, 9, 12], "input_seqs": ["NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACCCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGTCATGGACTGGGTCCGCCAGGCACCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAACAGGCAGCGGAACCAGAACTTTCCTACGGTATAGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTAGGAGGTCCCTGAGACTCTCCTTTTCAGCGTCTGGATTCACCTTCAGTAGGTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCATACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGTTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGTCCCGGCTGTGTATTACTGTGCGAGAGAGCCGGAACTGGTAGCACTAGTTCCCTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "NNNCTGGTTCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGAATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATCTGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGGGGACACGGCTGTGTATTACTGTGCGAGAGAGCCGACACAGGAACCACGAGTTCGCTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGGTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGGAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGTCACGGCTGTGGATTACTGTGCGAGAGGGCCGGCACCGGAACCGCTACTTACCTACGGTATGGACGTCTGGGGCCAAGGGACCACGGGCACCGTCTCCTCAG"], "naive_seq": "NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGCCGGAACCGGAACCACGAGTTTGCTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], []], "leader_seqs": ["", "", "", ""], "c_gene_seqs": ["", "", "", ""], "v_per_gene_support": {"IGHV3-33*01": 1.0}, "d_per_gene_support": {"IGHD1-14*01": 0.9999976766879956, "IGHD1-1*01": 1.6037445435736297e-06, "IGHD6-19*01": 3.624470931209077e-07, "IGHD2-15*01": 3.433366709190294e-07, "IGHD1-26*01": 1.3783696953904691e-08}, "j_per_gene_support": {"IGHJ6*02": 1.0}, "v_3p_del": 0, "d_5p_del": 5, "d_3p_del": 0, "j_5p_del": 13, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GCCGG", "dj_insertion": "GAGTTTG", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false, false, false, false], "in_frames": [true, true, true, true], "stops": [false, false, false, false], "paired-uids": [["453132f3ab-igk"], ["7334912e1e-igk"], [], ["21cea6e4d0-igh", "21cea6e4d0-igl", "f094dfd68a-igk"]], "loci": ["igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 339}}, {"has_shm_indels": [true, false, false], "qr_gap_seqs": ["NNNTTGGTGCAGCTGGTGGAGTCTGGGAGTGTATGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGGCTCTCATGGGCAGCCTCTGGATTCACCTTTACTAGCTATTTGATGAGCTGGGTTGGCCAGGCTCCAGGGAAGGGGCTGGAGTGCGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACTACTCTCCAGAGACAACGCCAAGAACTCACTGTATGTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGGTCCATCCCCTGGTGGTCCTGTGTGGGGTGACTACTGGGGCCAGGGAATCCTGGTCACCGTCTCCTCAG", "", ""], "gl_gap_seqs": ["NNNGAGGTGCAGCTGGTGGAGTCTGG........GGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCA.TCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGACCAATCCGCTAGTGGTCTTGGGCGGGGTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "", ""], "indel_reversed_seqs": ["NNNTTGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGGCTCTCATGGGCAGCCTCTGGATTCACCTTTACTAGCTATTTGATGAGCTGGGTTGGCCAGGCTCCAGGGAAGGGGCTGGAGTGCGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACTATCTCCAGAGACAACGCCAAGAACTCACTGTATGTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGGTCCATCCCCTGGTGGTCCTGTGTGGGGTGACTACTGGGGCCAGGGAATCCTGGTCACCGTCTCCTCAG", "", ""], "unique_ids": ["14195e4958-igh", "e11acbe3ab-igh", "eee2c7797d-igh"], "invalid": false, "v_gene": "IGHV3-7*01", "d_gene": "IGHD2-15*01", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.057692307692307696, 0.027472527472527472, 0.0521978021978022], "n_mutations": [21, 10, 19], "input_seqs": ["NNNTTGGTGCAGCTGGTGGAGTCTGGGAGTGTATGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGGCTCTCATGGGCAGCCTCTGGATTCACCTTTACTAGCTATTTGATGAGCTGGGTTGGCCAGGCTCCAGGGAAGGGGCTGGAGTGCGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACTACTCTCCAGAGACAACGCCAAGAACTCACTGTATGTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGGTCCATCCCCTGGTGGTCCTGTGTGGGGTGACTACTGGGGCCAGGGAATCCTGGTCACCGTCTCCTCAG", "NNNTAGGTGCAGCCGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTACTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGTGGCTGGAGTGTGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCAGCTCCAGAGACAACACCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACCCGGCTGTGTATTACTGTGCGAGAGACCAATCTGCTAGTGGTCTTGGGCGGGGTGACTACTGGGGCCAGGGAAGCCTGGTCACCGTCTCCTCAG", "NNNTAGGTGCAGCGGGTGGAGTATGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGAGCAGCCTCTGGATTCACCTTTACTAGCTATTGGATGAGCTGGGTCGGCCAGGCTCCAGGGAAGGGGCTGGAGTGTGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGCACTCTGTGAAGGGCCGACTCACCAGCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAATTGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGCAACCGGCTAGTGGTGTTTGGCGGGCTGAATACTGGGGCCAGGGAAGCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGACCAATCCGCTAGTGGTCTTGGGCGGGGTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], []], "leader_seqs": ["", "", ""], "c_gene_seqs": ["", "", ""], "v_per_gene_support": {"IGHV3-7*01": 1.0}, "d_per_gene_support": {"IGHD2-15*01": 0.7079306106414498, "IGHD3-3*01": 0.19490243135535493, "IGHD2-8*02": 0.09356104222735327, "IGHD1-26*01": 0.003469068386231306, "IGHD2-8*01": 0.0001368473895861747}, "j_per_gene_support": {"IGHJ4*02": 0.9999999971969373, "IGHJ5*02": 2.8030744541646952e-09}, "v_3p_del": 0, "d_5p_del": 9, "d_3p_del": 15, "j_5p_del": 7, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCAATCCGC", "dj_insertion": "CTTGGGCGGGG", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false, false, false], "in_frames": [true, true, true], "stops": [true, true, true], "paired-uids": [["14195e4958-igl", "d5ddf0c2ec-igl"], ["db63559ea9-igh", "db63559ea9-igk"], ["52387a89c7-igh", "52387a89c7-igk"]], "loci": ["igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 333}}, {"has_shm_indels": [true, false], "qr_gap_seqs": ["NNNCAGGTCCAGCTGCTGCAGCCTGGGGCTGAGCTGAAGAAGC............TGCAGGTCTCCTGCAAGGCTTCTGGAGGCACGTTCAGCAGCTTTGCTATCAACTGGGTGAGACAGGCCCCTGGACAAGGGCTTAGGGAGGTCAGGTAGGAGTGGATGGGAAGGATCATCCCTATCCGTGGTATAGCAAACTTCGCACAGAAGTTTCAGGGTGGAGTCACGATTCCCGCGGAAAAATCCACGATGCCAGCCTACATGGAGGTAAGCAGCCTTAGATCCGAGGACACGCTCGTGTATTACTGTGAGAGCCACCACGAGTTATGTCATAAAAATTACTTTGACTATTGGGGCCAGGGAACCCTGGTCACCGTTTGCTCAG", ""], "gl_gap_seqs": ["NNNCAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTT...............GAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGCCGCCACGCGTTATACCATAAAACTTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", ""], "indel_reversed_seqs": ["NNNCAGGTCCAGCTGCTGCAGCCTGGGGCTGAGCTGAAGAAGCCTGGGTCCTCGGTGCAGGTCTCCTGCAAGGCTTCTGGAGGCACGTTCAGCAGCTTTGCTATCAACTGGGTGAGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCGTGGTATAGCAAACTTCGCACAGAAGTTTCAGGGTGGAGTCACGATTCCCGCGGAAAAATCCACGATGCCAGCCTACATGGAGGTAAGCAGCCTTAGATCCGAGGACACGCTCGTGTATTACTGTGAGAGCCACCACGAGTTATGTCATAAAAATTACTTTGACTATTGGGGCCAGGGAACCCTGGTCACCGTTTGCTCAG", ""], "unique_ids": ["09f5010bd3-igh", "eee6809ad6-igh"], "invalid": false, "v_gene": "IGHV1-69*04", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.09065934065934066, 0.09065934065934066], "n_mutations": [33, 33], "input_seqs": ["NNNCAGGTCCAGCTGCTGCAGCCTGGGGCTGAGCTGAAGAAGCTGCAGGTCTCCTGCAAGGCTTCTGGAGGCACGTTCAGCAGCTTTGCTATCAACTGGGTGAGACAGGCCCCTGGACAAGGGCTTAGGGAGGTCAGGTAGGAGTGGATGGGAAGGATCATCCCTATCCGTGGTATAGCAAACTTCGCACAGAAGTTTCAGGGTGGAGTCACGATTCCCGCGGAAAAATCCACGATGCCAGCCTACATGGAGGTAAGCAGCCTTAGATCCGAGGACACGCTCGTGTATTACTGTGAGAGCCACCACGAGTTATGTCATAAAAATTACTTTGACTATTGGGGCCAGGGAACCCTGGTCACCGTTTGCTCAG", "NNNCAGGTCGAGCTGCTGCAGCCTGGGGCTGAGCTGAAGAAGCCTGGGGCCTCGCTGCAGGTCTCCTGCAAGGCTTCTGGAGGCACGTTCAGCAGCTTTGCTATCAACTGGGTGAGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCTGTGGTATAGCAAACTTCGCACAGAAGTTTCAGGGTTGAGTCACGATTCCCGCGGAAAAATCCACGATGCCAGCCTACATGGAGCTAAGCAGCCTGAGATCCGAGGACACGGTCGTGTATAACTGTGAGAGCCGCAACACGTTATATCATAAAACTAACTTTGACTATTGGGGCCAGGGAACCCTGGTCACCGTTTCCTCAG"], "naive_seq": "NNNCAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGCCGCCACGCGTTATACCATAAAACTTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], []], "leader_seqs": ["", ""], "c_gene_seqs": ["", ""], "v_per_gene_support": {"IGHV1-69*04": 1.0}, "d_per_gene_support": {"IGHD3-16*03": 0.9336685372120426, "IGHD3-3*01": 0.06559880570253067, "IGHD3-9*01": 0.0007326570854398782}, "j_per_gene_support": {"IGHJ4*02": 0.9999999999985789, "IGHJ5*02": 1.4021616982191138e-12}, "v_3p_del": 3, "d_5p_del": 28, "d_3p_del": 0, "j_5p_del": 3, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCGCCACG", "dj_insertion": "ATAAAACTT", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false, false], "in_frames": [true, true], "stops": [true, true], "paired-uids": [["09f5010bd3-igl", "cfe3b29587-igh", "cfe3b29587-igk"], ["bc11af4843-igh", "bc11af4843-igk", "eee6809ad6-igl"]], "loci": ["igh", "igh"], "codon_positions": {"v": 288, "j": 333}}, {"has_shm_indels": [true, false], "qr_gap_seqs": ["NNNTAGGTGCAGCTGGTGGAGTCTGGAGGAGGCTTGGTCCAGCCTGGGGGTTCCCTGAGACTCTCCTGTGCAACCTCTGGATTCACCTTTAGTAGCTATT.GATGAGCAGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAATGGTTGGCCAACATAAAGTAAGATGGAAGTGAGAAATACTATCTGGACTCTGTGAAGGGCCGACTTACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAGCAGCCTGAGAGCCGAGGTCACGGCTGTGTATTACTGTGCGAGAGAGAATTCCGCTAGTGGACCTGTTATCGGTGACTCCTGGGGCCAGGGATTCCTGGTCTCCGTCTCCTCAG", ""], "gl_gap_seqs": ["NNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGGGTCCCGCCAGTGCACCTGATACCGGTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", ""], "indel_reversed_seqs": ["NNNTAGGTGCAGCTGGTGGAGTCTGGAGGAGGCTTGGTCCAGCCTGGGGGTTCCCTGAGACTCTCCTGTGCAACCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCAGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAATGGTTGGCCAACATAAAGTAAGATGGAAGTGAGAAATACTATCTGGACTCTGTGAAGGGCCGACTTACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAGCAGCCTGAGAGCCGAGGTCACGGCTGTGTATTACTGTGCGAGAGAGAATTCCGCTAGTGGACCTGTTATCGGTGACTCCTGGGGCCAGGGATTCCTGGTCTCCGTCTCCTCAG", ""], "unique_ids": ["21cea6e4d0-igh", "57537e5f22-igh"], "invalid": false, "v_gene": "IGHV3-7*01", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.06593406593406594, 0.06318681318681318], "n_mutations": [24, 23], "input_seqs": ["NNNTAGGTGCAGCTGGTGGAGTCTGGAGGAGGCTTGGTCCAGCCTGGGGGTTCCCTGAGACTCTCCTGTGCAACCTCTGGATTCACCTTTAGTAGCTATTGATGAGCAGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAATGGTTGGCCAACATAAAGTAAGATGGAAGTGAGAAATACTATCTGGACTCTGTGAAGGGCCGACTTACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAGCAGCCTGAGAGCCGAGGTCACGGCTGTGTATTACTGTGCGAGAGAGAATTCCGCTAGTGGACCTGTTATCGGTGACTCCTGGGGCCAGGGATTCCTGGTCTCCGTCTCCTCAG", "NNNTAGGTGCAGCTTGTGGAGTCTGGAGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCATGTGCAGCCTCTCGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGGTCCAGGGAAGGGGCTGGAGTGGGTGGCCGAGATAAAGCAAGATGGTAGTCAGAAATACTATCTGGACTCACTGAAGGGCCGATTCACCAACTCCAGAGACAACGCCAAGACCTCACTGTATCTGCAAATGAGCAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGGGGGTCCCGCCATTGCAACTGACACCGGTGACTACTGGGGCCAGGCAATCCTGGGCACCGTCTCCTCAG"], "naive_seq": "NNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGGGTCCCGCCAGTGCACCTGATACCGGTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], []], "leader_seqs": ["", ""], "c_gene_seqs": ["", ""], "v_per_gene_support": {"IGHV3-7*01": 1.0}, "d_per_gene_support": {"IGHD3-16*03": 0.7677680346276209, "IGHD1-1*01": 0.23028015877168076, "IGHD6-6*01": 0.0012800212115014128, "IGHD1-26*01": 0.0006717853892368645}, "j_per_gene_support": {"IGHJ4*02": 0.9999992505751117, "IGHJ5*02": 7.494248813636061e-07}, "v_3p_del": 0, "d_5p_del": 32, "d_3p_del": 0, "j_5p_del": 7, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GGGTCCCGCCAGTGCACCTG", "dj_insertion": "GG", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false, false], "in_frames": [false, true], "stops": [true, true], "paired-uids": [["21cea6e4d0-igl", "f094dfd68a-igh", "f094dfd68a-igk"], ["57537e5f22-igl", "7ba384a461-igh", "7ba384a461-igk"]], "loci": ["igh", "igh"], "codon_positions": {"v": 288, "j": 333}}, {"has_shm_indels": [false, false], "qr_gap_seqs": ["", ""], "gl_gap_seqs": ["", ""], "indel_reversed_seqs": ["", ""], "unique_ids": ["665985d2d1-igh", "d1ee7f9ce6-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD6-19*01", "j_gene": "IGHJ5*02", "cdr3_length": 66, "mut_freqs": [0.015706806282722512, 0.01832460732984293], "n_mutations": [6, 7], "input_seqs": ["NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCACCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCATCTGGATTCACCGTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGAATTACTGTGCGAGAGAGGCTGGGTTAGATTTTGGGTTTGGTTAGTGTGCGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCACCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCATCTGGATTCACCGTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGAATTACTGTGCGAGAGAGGCTGGGTGAGATTTTGGGTTTGCTTACTATGGGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNCAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGGCTGGGTGAGATTTTGGGTTTGGTTAGTGTGGGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], []], "leader_seqs": ["", ""], "c_gene_seqs": ["", ""], "v_per_gene_support": {"IGHV3-33*01": 1.0}, "d_per_gene_support": {"IGHD6-19*01": 0.5498427718139053, "IGHD3-3*01": 0.4188548198724743, "IGHD3-16*03": 0.028855233142586194, "IGHD3-9*01": 0.002447175171016475}, "j_per_gene_support": {"IGHJ5*02": 1.0}, "v_3p_del": 0, "d_5p_del": 12, "d_3p_del": 3, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "GTGAGATTTTGGGTTTGGTTAGTGTGGGA", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false, false], "in_frames": [true, true], "stops": [true, true], "paired-uids": [["665985d2d1-igk"], ["d1ee7f9ce6-igk"]], "loci": ["igh", "igh"], "codon_positions": {"v": 288, "j": 351}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["276733008f-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD2-8*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.05865921787709497], "n_mutations": [21], "input_seqs": ["CAGGTCACCTTGAGGGCGTCTGGTCCTGCGCTGCTGAAACCCACAAAGACCCTCACACTTACCTGCACCTTCTCTGGGTTCCCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGCGATGATCATAAATATTATACCACATCTCTTAAGACCCGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCCTACATTGACCAACATGGACCCTGTGAACACAGCCACGTATTACTGTGCACGGATACTCTCTACTATTGGTTTTGTTTACTGGGGCCAGGGTACCCTGGTCACCCTCTCCTCAG"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTCTGTACTAATGGTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD2-8*01": 0.9667034825003873, "IGHD1-26*01": 0.033296517499616006}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "v_3p_del": 0, "d_5p_del": 7, "d_3p_del": 12, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TC", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["276733008f-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["28ce45b82a-igh"], "invalid": false, "v_gene": "IGHV1-69*04", "d_gene": "IGHD1-26*01", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["NNNCAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGCGTATAGTGGGAGCTACTACTTACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNCAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGCGTATAGTGGGAGCTACTACTTACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV1-69*04": 1.0}, "d_per_gene_support": {"IGHD1-26*01": 0.9999999957069079, "IGHD2-15*01": 4.293090340313514e-09}, "j_per_gene_support": {"IGHJ4*02": 0.999999999857998, "IGHJ5*02": 1.4200256428546358e-10}, "v_3p_del": 3, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GC", "dj_insertion": "TT", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["28ce45b82a-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 333}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["3542bd38d8-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD3-3*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.0782122905027933], "n_mutations": [28], "input_seqs": ["CCGGTCACCTTGAGGGAGTCTGGTCCCGCGCTGGTTAAACCCACACAGACCCTCACACTGACCTGCAACTTCTCTGGGCTCTCACTCAGCACTAGTGTAATGCGTGTGAGCTGGATCCGTCAGCCCCCAAGGAAGGCCCTGGAGTGGGATGCACTCATTGTTTGGGATGATCATATATACTACAGCACATCTCTGAAGACCAGGCTCACTATCTCCAAGGACACCTCCACAAACCCGGTGGTCCTTACAATGACCAACATGGTCCCTGTGGATACAGCCACGTATTACTGTGCACTGATACTCGCGAATTTGGATTTAGATTACTGGGGCCACGGAACTCTGTTCACCGTCTCCTCAA"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTCGCGATTTTTGACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD3-3*01": 0.6787543160763233, "IGHD3-16*03": 0.3080937839866766, "IGHD3-9*01": 0.01315189993699562}, "j_per_gene_support": {"IGHJ4*02": 0.9999702470345994, "IGHJ5*02": 2.9752965406579544e-05}, "v_3p_del": 0, "d_5p_del": 6, "d_3p_del": 16, "j_5p_del": 3, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TCG", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["3542bd38d8-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["3c5f4c778a-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD1-1*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.04748603351955307], "n_mutations": [17], "input_seqs": ["CAGGTCACCTTGAGGGCGTCTGGTCCTCCGCTGCTGAAACCCACAAAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCCCACTCAGCACGAGTGGAATGTGTGTGAGCTGGATCCTTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTCATTGGGATGCTCATAAATACTACAGCACATCTCTGAAGACCAAGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACCTGGACCCTGTGAACACAGCCACGTATTACTGTGCACGGATACTCCCAACTGTCGGTTTTGATTACTGGGGCCAGGGCACCCTGGTCACCCTCTCCTCAA"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTCCCAACTGTCGGTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD1-1*01": 0.488415118115327, "IGHD7-27*01": 0.48029125259610855, "IGHD2-8*02": 0.01633765712142096, "IGHD2-2*01": 0.014955972167129735}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "v_3p_del": 0, "d_5p_del": 4, "d_3p_del": 7, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TCC", "dj_insertion": "TCGGT", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["3c5f4c778a-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["52387a89c7-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD3-3*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.06424581005586592], "n_mutations": [23], "input_seqs": ["CCGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCTCTCAGCACTAGTGGCATGTGTGTGAGCTGGATCCGTCAGCCCGCAGGGCAGGCCCAGGAGGGGCTTGGACTCATTGATTGGGATGTTCATAAATACTACAGCACATCTCTGAGGAACAGGCTTACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATAACCAACATGGACCCTGTGGATACAGTAACGTATTACTGTGGACGGATACCCTCAATTTTGTACCTGGATTTCTGGGCCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCTCAATATTATACCTGGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD3-3*01": 0.8669773808407363, "IGHD2-15*01": 0.067760327762738, "IGHD2-2*01": 0.045746481764612115, "IGHD3-9*01": 0.019515809631929473}, "j_per_gene_support": {"IGHJ4*02": 0.9999776091998438, "IGHJ5*02": 2.2390800150116182e-05}, "v_3p_del": 0, "d_5p_del": 22, "d_3p_del": 0, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCTCAA", "dj_insertion": "TG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["52387a89c7-igk", "eee2c7797d-igh"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["789d880ef2-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD3-9*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.061452513966480445], "n_mutations": [22], "input_seqs": ["CAGGTCACCTTGAGGGAGTTTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCTCACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCTCTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGGACTCATTTATTGGTATGATCATAAATAATACGGCACATCGCTGAAGAGGAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGATCCTTACAATTACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTTCACGGATACACTAAAGTGTGACTGTTGATTCCTGGGGCCAGGGAACCCTGGTCACCGTATCCTCAG"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACACGATATTTTGACTGTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD3-9*01": 0.9520465873464513, "IGHD1-26*01": 0.047953412653544795}, "j_per_gene_support": {"IGHJ4*02": 0.9986875587196622, "IGHJ5*02": 0.0013124412803428623}, "v_3p_del": 0, "d_5p_del": 5, "d_3p_del": 11, "j_5p_del": 6, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "paired-uids": [["789d880ef2-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["b9148494e2-igh"], "invalid": false, "v_gene": "IGHV1-2*02", "d_gene": "IGHD6-6*01", "j_gene": "IGHJ3*02", "cdr3_length": 63, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["NNNCAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCGGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAACCCTAACAGTGGTGGCACAAACTATGCACAGAAGTTTCAGGGCAGGGTCACCATGACCAGGGACACGTCCATCAGCACAGCCTACATGGAGCTGAGCAGGCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAACCGGACTGCTCTGTATAGCAGCTCGTCCCGATGGTGATGCTTTTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG"], "naive_seq": "NNNCAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCGGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAACCCTAACAGTGGTGGCACAAACTATGCACAGAAGTTTCAGGGCAGGGTCACCATGACCAGGGACACGTCCATCAGCACAGCCTACATGGAGCTGAGCAGGCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAACCGGACTGCTCTGTATAGCAGCTCGTCCCGATGGTGATGCTTTTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV1-2*02": 1.0}, "d_per_gene_support": {"IGHD6-6*01": 0.9999992854308881, "IGHD6-19*01": 6.887629223866832e-07, "IGHD2-15*01": 2.5806183206409083e-08}, "j_per_gene_support": {"IGHJ3*02": 1.0}, "v_3p_del": 2, "d_5p_del": 2, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "ACCGGACTGCTCT", "dj_insertion": "CGATGG", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["b9148494e2-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 348}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["bc11af4843-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD2-2*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.05865921787709497], "n_mutations": [21], "input_seqs": ["CAGGTCAGCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTGTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCAAGGGAAGGCCCTGGAGTGGCTTGCCCTCATTGATTGGGATGATCATAAATACTACAGCAGGACTGTGAAGACCAGGCTCACCATCTTCCAGTACACCTCCAGAAAACAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTATGCAGAGTCAGCTTTGATTGCTGGGGCCAGGGAAGCCTGGTCACCGTGTCCCCAG"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTATGCCGAGTCAACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD2-2*01": 0.5527021321579755, "IGHD2-8*01": 0.3428150937549728, "IGHD2-8*02": 0.10448277408704772}, "j_per_gene_support": {"IGHJ4*02": 0.9999953481550304, "IGHJ5*02": 4.65184495817866e-06}, "v_3p_del": 0, "d_5p_del": 25, "d_3p_del": 0, "j_5p_del": 3, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "GAGTCA", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["bc11af4843-igk", "eee6809ad6-igh", "eee6809ad6-igl"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["db63559ea9-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD2-8*01", "j_gene": "IGHJ4*02", "cdr3_length": 33, "mut_freqs": [0.07102272727272728], "n_mutations": [25], "input_seqs": ["CTGGTCACCTTGAGGGAGTTCGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTGCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGACAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGGACTCATTGATTGGGATGATCATAAATACTGCTGCGCAGCTCTGGCGACCAGGATCACCATCTCCAAGGACACCTCCAAGGACCAGCTGGTCCTTACAATGATCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTCATAATTGTGGACTTTTGGGGCCAGGGAACACTGGTTACCGTCTCCTCAG"], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTACTAATGGTGGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV2-70*01": 1.0}, "d_per_gene_support": {"IGHD2-8*01": 1.0}, "j_per_gene_support": {"IGHJ4*02": 0.999984932524341, "IGHJ5*02": 1.5067475650940184e-05}, "v_3p_del": 0, "d_5p_del": 9, "d_3p_del": 11, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["db63559ea9-igk", "e11acbe3ab-igh"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 318}}]}
test/paired/new-results/subset-partition-new-simu/merged-partition.log CHANGED
@@ -17,7 +17,7 @@ partis partition --dont-write-git-info --paired-loci --paired-indir test/paired/
17
17
  removed 3/56 queries from input info that were absent from input partition
18
18
  partitioning (with test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/hmm)
19
19
  smith-waterman
20
- vsearch: 53 / 53 v annotations (0 failed) with 6 v genes in 0.2 sec
20
+ vsearch: 53 / 53 v annotations (0 failed) with 6 v genes in 0.0 sec
21
21
  reading sw results from test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/sw-cache.yaml
22
22
  info for 53 / 53 = 1.000 (removed: 0 failed, 0 duplicates [removed when cache file was written])
23
23
  kept 24 (0.453) unproductive
@@ -27,16 +27,16 @@ hmm
27
27
  caching input annotation naive seqs in bcrham cache file for 27 clusters (53 seqs)
28
28
  --continue-from-input-partition: using input partition for initial cpath
29
29
  27 clusters (53 seqs)
30
- 27 clusters with 10 procs (0.5s)
31
- 26 clusters with 7 procs (0.5s)
32
- 23 clusters with 5 procs (0.4s)
33
- 22 clusters with 3 procs (0.4s)
34
- 21 clusters with 2 procs (0.4s)
35
- 21 clusters with 1 proc (0.8s)
36
- partition loop time: 3.1
30
+ 27 clusters with 10 procs (0.3s)
31
+ 26 clusters with 7 procs (0.3s)
32
+ 23 clusters with 5 procs (0.3s)
33
+ 22 clusters with 3 procs (0.3s)
34
+ 21 clusters with 2 procs (0.1s)
35
+ 21 clusters with 1 proc (0.4s)
36
+ partition loop time: 1.7
37
37
  getting annotations for final partition
38
- subcluster annotating 18 clusters with steps: (0.7s) (0.4s) (0.2s)
39
- subcluster annotation time 1.3
38
+ subcluster annotating 18 clusters with steps: (0.6s) (0.2s) (0.1s)
39
+ subcluster annotation time 1.0
40
40
  warning added 3 / 56 missing ids as singletons to inferred partition, to match ids in true partition
41
41
  warning added 3 / 56 missing ids as singletons to inferred partition, to match ids in true partition
42
42
  warning added 3 / 56 missing ids as singletons to inferred partition, to match ids in true partition
@@ -47,7 +47,7 @@ getting annotations for final partition
47
47
  warning added 3 / 56 missing ids as singletons to inferred partition, to match ids in true partition
48
48
  warning added 3 / 56 missing ids as singletons to inferred partition, to match ids in true partition
49
49
  warning added 3 / 56 missing ids as singletons to inferred partition, to match ids in true partition
50
- total time: 4.8
50
+ total time: 2.8
51
51
  partition igk:
52
52
  run partis partition --locus igk --dont-write-git-info --max-ccf-fail-frac 0.15 --is-simu --random-seed 1 --n-procs 10 --input-metafnames test/paired/new-results/subset-partition-new-simu/merged-subsets/meta.yaml --input-partition-fname test/paired/new-results/subset-partition-new-simu/merged-subsets/partition-igk.yaml --continue-from-input-partition --parameter-dir test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igk --ignore-sw-pair-info --refuse-to-cache-parameters --ignore-default-input-metafile --infname test/paired/ref-results/test/simu/igk.yaml --outfname test/paired/new-results/subset-partition-new-simu/single-chain/partition-igk.yaml --sw-cachefname test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igk/sw-cache.yaml
53
53
  warning replacing 'paired-uids'/'paired-uids' value for 'bc11af4843-igk' with value from test/paired/new-results/subset-partition-new-simu/merged-subsets/meta.yaml: ['bc11af4843-igh', 'eee6809ad6-igh', 'eee6809ad6-igl'] --> ['eee6809ad6-igh']
@@ -63,7 +63,7 @@ getting annotations for final partition
63
63
  --input-partition-fname: read best partition with 36 sequences in 19 clusters from test/paired/new-results/subset-partition-new-simu/merged-subsets/partition-igk.yaml
64
64
  partitioning (with test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igk/hmm)
65
65
  smith-waterman
66
- vsearch: 36 / 36 v annotations (0 failed) with 5 v genes in 0.1 sec
66
+ vsearch: 36 / 36 v annotations (0 failed) with 5 v genes in 0.0 sec
67
67
  reading sw results from test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igk/sw-cache.yaml
68
68
  info for 36 / 36 = 1.000 (removed: 0 failed, 0 duplicates [removed when cache file was written])
69
69
  kept 14 (0.389) unproductive
@@ -73,18 +73,18 @@ hmm
73
73
  caching input annotation naive seqs in bcrham cache file for 19 clusters (36 seqs)
74
74
  --continue-from-input-partition: using input partition for initial cpath
75
75
  19 clusters (36 seqs)
76
- 19 clusters with 10 procs (0.3s)
77
- 17 clusters with 7 procs (0.3s)
78
- 15 clusters with 5 procs (0.3s)
79
- 12 clusters with 3 procs (0.2s)
80
- 11 clusters with 2 procs (0.2s)
81
- 7 clusters with 1 proc (0.3s)
76
+ 19 clusters with 10 procs (0.1s)
77
+ 17 clusters with 7 procs (0.0s)
78
+ 15 clusters with 5 procs (0.1s)
79
+ 12 clusters with 3 procs (0.0s)
80
+ 11 clusters with 2 procs (0.1s)
81
+ 7 clusters with 1 proc (0.2s)
82
82
  note not merging entire cpath history
83
- partition loop time: 1.7
83
+ partition loop time: 0.5
84
84
  getting annotations for final partition
85
- subcluster annotating 6 clusters with steps: (0.4s) (0.2s) (0.1s)
86
- subcluster annotation time 0.8
87
- total time: 2.7
85
+ subcluster annotating 6 clusters with steps: (0.3s) (0.1s) (0.1s)
86
+ subcluster annotation time 0.4
87
+ total time: 1.0
88
88
  partition igl:
89
89
  run partis partition --locus igl --dont-write-git-info --max-ccf-fail-frac 0.15 --is-simu --random-seed 1 --n-procs 10 --input-metafnames test/paired/new-results/subset-partition-new-simu/merged-subsets/meta.yaml --input-partition-fname test/paired/new-results/subset-partition-new-simu/merged-subsets/partition-igl.yaml --continue-from-input-partition --parameter-dir test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igl --ignore-sw-pair-info --refuse-to-cache-parameters --ignore-default-input-metafile --infname test/paired/ref-results/test/simu/igl.yaml --outfname test/paired/new-results/subset-partition-new-simu/single-chain/partition-igl.yaml --sw-cachefname test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igl/sw-cache.yaml
90
90
  warning replacing 'paired-uids'/'paired-uids' value for '7588f09c07-igl' with value from test/paired/new-results/subset-partition-new-simu/merged-subsets/meta.yaml: ['7588f09c07-igh', 'cb8a759f1a-igh'] --> ['7588f09c07-igh']
@@ -102,7 +102,7 @@ getting annotations for final partition
102
102
  removed 3/21 queries from input info that were absent from input partition
103
103
  partitioning (with test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igl/hmm)
104
104
  smith-waterman
105
- vsearch: 18 / 18 v annotations (0 failed) with 3 v genes in 0.1 sec
105
+ vsearch: 18 / 18 v annotations (0 failed) with 3 v genes in 0.0 sec
106
106
  reading sw results from test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igl/sw-cache.yaml
107
107
  info for 18 / 18 = 1.000 (removed: 0 failed, 0 duplicates [removed when cache file was written])
108
108
  kept 13 (0.722) unproductive
@@ -113,23 +113,23 @@ hmm
113
113
  --continue-from-input-partition: using input partition for initial cpath
114
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  8 clusters (18 seqs)
115
115
  reducing n procs to number of clusters: 10 --> 8
116
- 8 clusters with 8 procs (0.3s)
117
- 8 clusters with 6 procs (0.3s)
118
- 7 clusters with 4 procs (0.2s)
119
- 6 clusters with 3 procs (0.2s)
120
- 6 clusters with 2 procs (0.2s)
121
- 3 clusters with 1 proc (0.3s)
122
- partition loop time: 1.5
116
+ 8 clusters with 8 procs (0.0s)
117
+ 8 clusters with 6 procs (0.0s)
118
+ 7 clusters with 4 procs (0.0s)
119
+ 6 clusters with 3 procs (0.0s)
120
+ 6 clusters with 2 procs (0.0s)
121
+ 3 clusters with 1 proc (0.1s)
122
+ partition loop time: 0.3
123
123
  getting annotations for final partition
124
- subcluster annotating 3 clusters with steps: (0.3s) (0.1s) (0.2s)
125
- subcluster annotation time 0.6
124
+ subcluster annotating 3 clusters with steps: (0.1s) (0.1s) (0.1s)
125
+ subcluster annotation time 0.2
126
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  warning added 3 / 21 missing ids as singletons to inferred partition, to match ids in true partition
127
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  warning added 3 / 21 missing ids as singletons to inferred partition, to match ids in true partition
128
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  warning added 3 / 21 missing ids as singletons to inferred partition, to match ids in true partition
129
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  warning added 3 / 21 missing ids as singletons to inferred partition, to match ids in true partition
130
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  warning added 3 / 21 missing ids as singletons to inferred partition, to match ids in true partition
131
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  warning added 3 / 21 missing ids as singletons to inferred partition, to match ids in true partition
132
- total time: 2.3
132
+ total time: 0.6
133
133
  combining chains
134
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  cleaning pair info for 107 seqs
135
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  synchronized/fixed 0 pairs where one had no pair info after cleaning: h 0 k 0 l 0
@@ -165,7 +165,6 @@ WARNING using errors instead of sumw2 with weight != 1.0 in Hist::fill_ibin()
165
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  joint 0.963 0.594
166
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  merge time 0.0
167
167
  need to get annotations for 6/15 joint igh clusters
168
- tag: v1.0.8
169
168
  annotate igh+igk: igh
170
169
  removed 1 arg strs that were specific to action 'partition': --continue-from-input-partition
171
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  run partis annotate --locus igh --dont-write-git-info --max-ccf-fail-frac 0.15 --random-seed 1 --n-procs 10 --input-metafnames test/paired/new-results/subset-partition-new-simu/igh+igk/meta-igh.yaml --input-partition-fname test/paired/new-results/subset-partition-new-simu/igh+igk/partition-igh-only-partition.yaml --parameter-dir test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh --ignore-sw-pair-info --refuse-to-cache-parameters --ignore-default-input-metafile --infname test/paired/new-results/subset-partition-new-simu/igh+igk/input-seqs-igh.fa --outfname test/paired/new-results/subset-partition-new-simu/igh+igk/partition-igh.yaml --sw-cachefname test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/sw-cache.yaml --ignore-sw-pair-info
@@ -173,17 +172,16 @@ WARNING using errors instead of sumw2 with weight != 1.0 in Hist::fill_ibin()
173
172
  --input-partition-fname: read best partition with 35 sequences in 15 clusters from test/paired/new-results/subset-partition-new-simu/igh+igk/partition-igh-only-partition.yaml
174
173
  annotating (with test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/hmm)
175
174
  smith-waterman
176
- vsearch: 35 / 35 v annotations (0 failed) with 5 v genes in 0.2 sec
175
+ vsearch: 35 / 35 v annotations (0 failed) with 5 v genes in 0.0 sec
177
176
  reading sw results from test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/sw-cache.yaml
178
177
  info for 35 / 35 = 1.000 (removed: 0 failed, 0 duplicates [removed when cache file was written])
179
178
  kept 13 (0.371) unproductive
180
179
  water time: 0.0
181
180
  hmm
182
- subcluster annotating 15 clusters with steps: (0.6s) (0.3s)
183
- subcluster annotation time 0.8
184
- total time: 1.1
181
+ subcluster annotating 15 clusters with steps: (0.4s) (0.1s)
182
+ subcluster annotation time 0.6
183
+ total time: 0.6
185
184
  need to get annotations for 13/15 joint igk clusters
186
- tag: v1.0.8
187
185
  annotate igh+igk: igk
188
186
  removed 1 arg strs that were specific to action 'partition': --continue-from-input-partition
189
187
  run partis annotate --locus igk --dont-write-git-info --max-ccf-fail-frac 0.15 --random-seed 1 --n-procs 10 --input-metafnames test/paired/new-results/subset-partition-new-simu/igh+igk/meta-igk.yaml --input-partition-fname test/paired/new-results/subset-partition-new-simu/igh+igk/partition-igk-only-partition.yaml --parameter-dir test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igk --ignore-sw-pair-info --refuse-to-cache-parameters --ignore-default-input-metafile --infname test/paired/new-results/subset-partition-new-simu/igh+igk/input-seqs-igk.fa --outfname test/paired/new-results/subset-partition-new-simu/igh+igk/partition-igk.yaml --sw-cachefname test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igk/sw-cache.yaml --ignore-sw-pair-info
@@ -191,15 +189,15 @@ hmm
191
189
  --input-partition-fname: read best partition with 36 sequences in 15 clusters from test/paired/new-results/subset-partition-new-simu/igh+igk/partition-igk-only-partition.yaml
192
190
  annotating (with test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igk/hmm)
193
191
  smith-waterman
194
- vsearch: 36 / 36 v annotations (0 failed) with 5 v genes in 0.2 sec
192
+ vsearch: 36 / 36 v annotations (0 failed) with 5 v genes in 0.0 sec
195
193
  reading sw results from test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igk/sw-cache.yaml
196
194
  info for 36 / 36 = 1.000 (removed: 0 failed, 0 duplicates [removed when cache file was written])
197
195
  kept 14 (0.389) unproductive
198
196
  water time: 0.0
199
197
  hmm
200
- subcluster annotating 15 clusters with steps: (0.6s) (0.2s)
201
- subcluster annotation time 0.8
202
- total time: 1.0
198
+ subcluster annotating 15 clusters with steps: (0.3s) (0.1s)
199
+ subcluster annotation time 0.4
200
+ total time: 0.5
203
201
  igh+igl: synchronizing heavy and light chain cluster paths
204
202
  removing badly + unpaired seqs: kept 3 total unpaired (i.e. setting aside in order to reintegrate after paired clustering): h 2 l 1
205
203
  note: discarding unpaired seqs in families with no (well-)paired seqs (i.e. families that are all either unpaired or paired to the other/wrong light chain), rather than keeping track of them to re-add later
@@ -228,7 +226,6 @@ hmm
228
226
  joint 1.000 0.787
229
227
  merge time 0.0
230
228
  need to get annotations for 2/6 joint igh clusters
231
- tag: v1.0.8
232
229
  annotate igh+igl: igh
233
230
  removed 1 arg strs that were specific to action 'partition': --continue-from-input-partition
234
231
  run partis annotate --locus igh --dont-write-git-info --max-ccf-fail-frac 0.15 --random-seed 1 --n-procs 10 --input-metafnames test/paired/new-results/subset-partition-new-simu/igh+igl/meta-igh.yaml --input-partition-fname test/paired/new-results/subset-partition-new-simu/igh+igl/partition-igh-only-partition.yaml --parameter-dir test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh --ignore-sw-pair-info --refuse-to-cache-parameters --ignore-default-input-metafile --infname test/paired/new-results/subset-partition-new-simu/igh+igl/input-seqs-igh.fa --outfname test/paired/new-results/subset-partition-new-simu/igh+igl/partition-igh.yaml --sw-cachefname test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/sw-cache.yaml --ignore-sw-pair-info
@@ -236,17 +233,16 @@ hmm
236
233
  --input-partition-fname: read best partition with 19 sequences in 6 clusters from test/paired/new-results/subset-partition-new-simu/igh+igl/partition-igh-only-partition.yaml
237
234
  annotating (with test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/hmm)
238
235
  smith-waterman
239
- vsearch: 19 / 19 v annotations (0 failed) with 4 v genes in 0.1 sec
236
+ vsearch: 19 / 19 v annotations (0 failed) with 4 v genes in 0.0 sec
240
237
  reading sw results from test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/sw-cache.yaml
241
238
  info for 19 / 19 = 1.000 (removed: 0 failed, 0 duplicates [removed when cache file was written])
242
239
  kept 11 (0.579) unproductive
243
240
  water time: 0.0
244
241
  hmm
245
- subcluster annotating 6 clusters with steps: (0.4s) (0.3s) (0.3s)
246
- subcluster annotation time 1.0
247
- total time: 1.1
242
+ subcluster annotating 6 clusters with steps: (0.3s) (0.1s) (0.1s)
243
+ subcluster annotation time 0.5
244
+ total time: 0.6
248
245
  need to get annotations for 6/6 joint igl clusters
249
- tag: v1.0.8
250
246
  annotate igh+igl: igl
251
247
  removed 1 arg strs that were specific to action 'partition': --continue-from-input-partition
252
248
  run partis annotate --locus igl --dont-write-git-info --max-ccf-fail-frac 0.15 --random-seed 1 --n-procs 10 --input-metafnames test/paired/new-results/subset-partition-new-simu/igh+igl/meta-igl.yaml --input-partition-fname test/paired/new-results/subset-partition-new-simu/igh+igl/partition-igl-only-partition.yaml --parameter-dir test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igl --ignore-sw-pair-info --refuse-to-cache-parameters --ignore-default-input-metafile --infname test/paired/new-results/subset-partition-new-simu/igh+igl/input-seqs-igl.fa --outfname test/paired/new-results/subset-partition-new-simu/igh+igl/partition-igl.yaml --sw-cachefname test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igl/sw-cache.yaml --ignore-sw-pair-info
@@ -254,15 +250,15 @@ hmm
254
250
  --input-partition-fname: read best partition with 18 sequences in 6 clusters from test/paired/new-results/subset-partition-new-simu/igh+igl/partition-igl-only-partition.yaml
255
251
  annotating (with test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igl/hmm)
256
252
  smith-waterman
257
- vsearch: 18 / 18 v annotations (0 failed) with 3 v genes in 0.1 sec
253
+ vsearch: 18 / 18 v annotations (0 failed) with 3 v genes in 0.0 sec
258
254
  reading sw results from test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igl/sw-cache.yaml
259
255
  info for 18 / 18 = 1.000 (removed: 0 failed, 0 duplicates [removed when cache file was written])
260
256
  kept 13 (0.722) unproductive
261
257
  water time: 0.0
262
258
  hmm
263
- subcluster annotating 6 clusters with steps: (0.3s) (0.2s) (0.2s)
264
- subcluster annotation time 0.7
265
- total time: 0.9
259
+ subcluster annotating 6 clusters with steps: (0.2s) (0.1s) (0.1s)
260
+ subcluster annotation time 0.3
261
+ total time: 0.3
266
262
  --input-metafnames: no meta info added from test/paired/new-results/subset-partition-new-simu/merged-subsets/meta.yaml
267
263
  concatenating heavy chain loci:
268
264
  h starting with 15 annotations (35 seqs)
@@ -276,4 +272,4 @@ hmm
276
272
  h 18 --> 21 +3
277
273
  k 6 --> 15 +9
278
274
  l 3 --> 6 +3
279
- total time: 30.7
275
+ total time: 15.0